Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 48 of 91
Found at i:10150112 original size:29 final size:29
Alignment explanation
Indices: 10150078--10150147 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
10150068 AATTTTTTCA
* *
10150078 AAAATAGCACCCTTTTCAAAATAATTACC
1 AAAATACCACCCGTTTCAAAATAATTACC
* * *
10150107 AGAATACCATCAGTTTCAAAATAATTACC
1 AAAATACCACCCGTTTCAAAATAATTACC
10150136 AAAATACCACCC
1 AAAATACCACCC
10150148 CGGTCAACGG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.46, C:0.26, G:0.04, T:0.24
Consensus pattern (29 bp):
AAAATACCACCCGTTTCAAAATAATTACC
Found at i:10150176 original size:12 final size:12
Alignment explanation
Indices: 10150161--10150193 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
10150151 TCAACGGTCG
10150161 GGTCGGGTCAAC
1 GGTCGGGTCAAC
10150173 GGTCGGGTCAAC
1 GGTCGGGTCAAC
10150185 GGTCGGGTC
1 GGTCGGGTC
10150194 GGGTTAACAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.12, C:0.24, G:0.45, T:0.18
Consensus pattern (12 bp):
GGTCGGGTCAAC
Found at i:10150197 original size:17 final size:17
Alignment explanation
Indices: 10150149--10150181 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
10150139 ATACCACCCC
10150149 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
10150166 GGTCAACGGTCGGGTC
1 GGTCAACGGTCGGGTC
10150182 AACGGTCGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.24, G:0.45, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:10153340 original size:42 final size:42
Alignment explanation
Indices: 10153281--10153372 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
10153271 CCAAATATTA
*
10153281 TTTGTATTACGCCAATGATAGTTGCAACCGTCTGCAATTAAG
1 TTTGTATTACGCCAATGATACTTGCAACCGTCTGCAATTAAG
10153323 TTTGTATTACGCCAATGATACTTGCAACCGTCTGCAATTAAG
1 TTTGTATTACGCCAATGATACTTGCAACCGTCTGCAATTAAG
10153365 TTTCGTAT
1 TTT-GTAT
10153373 ATATTTTATG
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 44 0.92
43 4 0.08
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (42 bp):
TTTGTATTACGCCAATGATACTTGCAACCGTCTGCAATTAAG
Found at i:10156824 original size:20 final size:19
Alignment explanation
Indices: 10156801--10156853 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 19
10156791 ATCAAAATCA
*
10156801 TTTTTCAAAATTCAATTTT
1 TTTTTCAAAATCCAATTTT
*
10156820 GTTTTTTAAAATCCAATTTT
1 -TTTTTCAAAATCCAATTTT
*
10156840 TGTTTCAAAA-CCAA
1 TTTTTCAAAATCCAA
10156854 ATTATTTTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 4 0.14
19 8 0.28
20 17 0.59
ACGTcount: A:0.34, C:0.13, G:0.04, T:0.49
Consensus pattern (19 bp):
TTTTTCAAAATCCAATTTT
Found at i:10157877 original size:17 final size:17
Alignment explanation
Indices: 10157855--10157922 Score: 73
Period size: 17 Copynumber: 3.9 Consensus size: 17
10157845 AATTAAGAGT
10157855 TAGTTTAATAAATGAAC
1 TAGTTTAATAAATGAAC
* **
10157872 TAGTTTGATTTATGAAC
1 TAGTTTAATAAATGAAC
*
10157889 TAGTTTAATTAATGAAC
1 TAGTTTAATAAATGAAC
* *
10157906 TAACTTTATTAAATGAA
1 T-AGTTTAATAAATGAA
10157923 ATAGATGCTT
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
17 30 0.71
18 12 0.29
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (17 bp):
TAGTTTAATAAATGAAC
Found at i:10157935 original size:18 final size:17
Alignment explanation
Indices: 10157914--10157973 Score: 70
Period size: 16 Copynumber: 3.5 Consensus size: 17
10157904 ACTAACTTTA
10157914 TTAAATGAAATAG-ATGC
1 TTAAATGAAAT-GCATGC
*
10157931 TTTAAATGCAATGCATGC
1 -TTAAATGAAATGCATGC
*
10157949 TTAAATGAACT-CATGC
1 TTAAATGAAATGCATGC
10157965 TTAAATGAA
1 TTAAATGAA
10157974 GTAGCATGGT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
16 14 0.37
17 10 0.26
18 14 0.37
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.32
Consensus pattern (17 bp):
TTAAATGAAATGCATGC
Found at i:10158419 original size:38 final size:39
Alignment explanation
Indices: 10158352--10158432 Score: 119
Period size: 38 Copynumber: 2.1 Consensus size: 39
10158342 TTCGAGTAAT
* *
10158352 ATATGCACCGTAGTGCTTACACATAAGGTCATTCCCACC
1 ATATGCACCGAAGTGCTTACACATAAGGTCATGCCCACC
* *
10158391 ATATGCATCGAAGTGC-TACACATAAGGTCGTGCCCACC
1 ATATGCACCGAAGTGCTTACACATAAGGTCATGCCCACC
10158429 ATAT
1 ATAT
10158433 ACACTTAGTG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
38 24 0.63
39 14 0.37
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (39 bp):
ATATGCACCGAAGTGCTTACACATAAGGTCATGCCCACC
Found at i:10165821 original size:2 final size:2
Alignment explanation
Indices: 10165814--10165847 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
10165804 CCCTATTAGA
10165814 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10165848 CAAAACAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10180330 original size:24 final size:24
Alignment explanation
Indices: 10180303--10180362 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 24
10180293 GACATGTCCT
* *
10180303 TTGACGTTCCAACAGCTATGCCAC
1 TTGACGTTCCAAAAGATATGCCAC
* ** *
10180327 TTGATGTTAAAAAAGATGTGCCAC
1 TTGACGTTCCAAAAGATATGCCAC
*
10180351 TTGACGTGCCAA
1 TTGACGTTCCAA
10180363 GAAATTGGAT
Statistics
Matches: 26, Mismatches: 10, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (24 bp):
TTGACGTTCCAAAAGATATGCCAC
Found at i:10193159 original size:53 final size:53
Alignment explanation
Indices: 10193077--10193180 Score: 181
Period size: 53 Copynumber: 2.0 Consensus size: 53
10193067 TAAGGTAATG
*
10193077 AAATGGTAATTCACAAACTCATCATGAATACCATGGGTGCACACATAGTGCCA
1 AAATGGTAATTCACAAACTCATCACGAATACCATGGGTGCACACATAGTGCCA
* *
10193130 AAATGGTAATTCACAAACTCATTACGAATACCATGGGTGCATACATAGTGC
1 AAATGGTAATTCACAAACTCATCACGAATACCATGGGTGCACACATAGTGC
10193181 AGAAAGTACA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (53 bp):
AAATGGTAATTCACAAACTCATCACGAATACCATGGGTGCACACATAGTGCCA
Found at i:10200262 original size:53 final size:54
Alignment explanation
Indices: 10200182--10200292 Score: 179
Period size: 53 Copynumber: 2.1 Consensus size: 54
10200172 TAAGGTAACG
* *
10200182 AAATGGTAATTCACAAACTCATCATGAATACCATGGGTGCACACATAGTGCC-A
1 AAATGGTAATTCACAAACTCATCATGAATACAATGGGTGCACACATAATGCCGA
* *
10200235 AAATGGTAATTCACAAACTCATTATGAATACAATGGGTTCACACATAATGCCGA
1 AAATGGTAATTCACAAACTCATCATGAATACAATGGGTGCACACATAATGCCGA
10200289 AAAT
1 AAAT
10200293 ACATATAGTA
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
53 48 0.91
54 5 0.09
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (54 bp):
AAATGGTAATTCACAAACTCATCATGAATACAATGGGTGCACACATAATGCCGA
Found at i:10207097 original size:21 final size:21
Alignment explanation
Indices: 10207073--10207120 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
10207063 ATTGATGTGT
*
10207073 AATGTTTAAAGGTATTGTTGG
1 AATGCTTAAAGGTATTGTTGG
* * *
10207094 AATGCTTGAATGTGTTGTTGG
1 AATGCTTAAAGGTATTGTTGG
10207115 AA-GCTT
1 AATGCTT
10207121 GAACTTGAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.25, C:0.04, G:0.29, T:0.42
Consensus pattern (21 bp):
AATGCTTAAAGGTATTGTTGG
Found at i:10211502 original size:17 final size:18
Alignment explanation
Indices: 10211480--10211514 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
10211470 TCAAATTTTT
10211480 ATATTTAAAT-TGAAATA
1 ATATTTAAATATGAAATA
10211497 ATATTTAAATATGAAATA
1 ATATTTAAATATGAAATA
10211515 TTCCTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (18 bp):
ATATTTAAATATGAAATA
Found at i:10213613 original size:14 final size:14
Alignment explanation
Indices: 10213568--10213604 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
10213558 CAGTCAAGTT
10213568 GAGTCAACTTGTTC
1 GAGTCAACTTGTTC
10213582 GAGTCAACTTGTTC
1 GAGTCAACTTGTTC
10213596 GAGTCAACT
1 GAGTCAACT
10213605 CGTTTGAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (14 bp):
GAGTCAACTTGTTC
Found at i:10225050 original size:81 final size:81
Alignment explanation
Indices: 10224952--10225505 Score: 770
Period size: 81 Copynumber: 6.9 Consensus size: 81
10224942 ACCAAAATGC
* * * * *
10224952 ATTTAGCCTTTCATCTAACTTGCATGATTGACACCTTCCTGCCAAATGCACAGCTATGCCATTAA
1 ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAA
* *
10225017 TATTTTACTCAACGGT
66 TCTTTTACTCAAAGGT
* * ** * * *
10225033 ATTCAACCTTTCGTCTAACTGGCATAATCAACACCTTTTTACCAAATGCACAACTAGGCCATTAA
1 ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAA
10225098 TCTTTTACTCAAAGGT
66 TCTTTTACTCAAAGGT
** * * * *
10225114 ATTTAATATTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATACATAGTTAGGCCATTAA
1 ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAA
10225179 TCTTTTACTCAAAGGT
66 TCTTTTACTCAAAGGT
* ** * * *
10225195 ATTTCACCTTTCATCTAACTGAAATAATTGACACTTTTCTGCCAAATGCAGAGCTAGGCCAATAA
1 ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAA
10225260 TCTTTTACTCAAAGGT
66 TCTTTTACTCAAAGGT
* ** ** *
10225276 ATTTAACATTTCATCTAACTAACATAATTGACACCTTTCTGGAAAATGCACATCTAGGCCATTAA
1 ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAA
10225341 TCTTTTACTCAAAGGT
66 TCTTTTACTCAAAGGT
* * *
10225357 ATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTACCAAATGCACAGCTAGGTCATTAA
1 ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAA
10225422 TC--TTACTCAAAGGT
66 TCTTTTACTCAAAGGT
*
10225436 ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAA
1 ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAA
10225501 TCTTT
66 TCTTT
10225506 CATTTTAGAA
Statistics
Matches: 411, Mismatches: 60, Indels: 4
0.87 0.13 0.01
Matches are distributed among these distances:
79 75 0.18
81 336 0.82
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (81 bp):
ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAA
TCTTTTACTCAAAGGT
Found at i:10231069 original size:81 final size:81
Alignment explanation
Indices: 10230953--10232253 Score: 1929
Period size: 81 Copynumber: 16.1 Consensus size: 81
10230943 TAAGCATTTC
* * * ** *
10230953 ATCTTTTACCCAAAGGCATTTATCCTTTCATCTAACAAGCATGATTGACACCTTTCTGCCAAATG
1 ATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATG
*
10231018 CACAACTAGGCCATTA
66 CACAGCTAGGCCATTA
* * * * **
10231034 ATCTATTACTCAAAGGTATTCAACCTCTCATCTAACCGGCATAATTGACACCTTTCTGGTAAATG
1 ATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATG
*
10231099 CAAAGCTAGGCCATTA
66 CACAGCTAGGCCATTA
* * * *
10231115 ATCTTTTACTCAAAGGTATGTAACCTTTCATCTAACTGACATAATTGACACCTTTTTGCCAAATT
1 ATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATG
10231180 CACAGCTAGGCCATTA
66 CACAGCTAGGCCATTA
* * *
10231196 ATCTTTTACTCAAAGGTATTTAACCTTTCATTTAACTGGCATAATTGACACTTTTCTGCAAAATG
1 ATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATG
10231261 CACAGCTAGGCCATTA
66 CACAGCTAGGCCATTA
* * * *
10231277 ATCTTTTACTCAAATGTATTTAACCTTTCATCTAACTGGCATAATTAACATCTTTCTACCAAATG
1 ATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATG
10231342 CACAGCTAGGCCATTA
66 CACAGCTAGGCCATTA
* *
10231358 ATCTTTTACTCAAAGGTATTCAACCTTTCATCTAACTAGCATAATTGACACCTTTCTGCCAAATG
1 ATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATG
*
10231423 CACAACTAGGCCATTA
66 CACAGCTAGGCCATTA
* * *
10231439 ATATTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACATCTTTCTGCCAAATG
1 ATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATG
10231504 CACAGCTAGGCCATTA
66 CACAGCTAGGCCATTA
* * * *
10231520 ATATTTTACTCAAAGGTATTTAA-CTTTCATTTAACTGGCATAATTGACACATTTATGCCAAATG
1 ATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATG
*
10231584 CACATCTAGGCCATTA
66 CACAGCTAGGCCATTA
* ** * * * *
10231600 ATCTTTTACTCAATGGTATTTAACCTTTCATCTAACTAACATAATTGATACCTTTTTTCCAAATT
1 ATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATG
10231665 CACAGCTAGGCCATTA
66 CACAGCTAGGCCATTA
* * * * *
10231681 ATCTTTTACTCAAAGGTATTTAACCTTTCATTTAACTGACATAATTTACACATTTCTGTCAAATG
1 ATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATG
10231746 CACAGCTAGGCCATTA
66 CACAGCTAGGCCATTA
* * * ** * * *
10231762 ATCTTTTACTCAAATGTATTTAACCATTCATCTAACTGGCAGAATTGACATATTTCTACCACATA
1 ATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATG
** *
10231827 CATGGCGAGGCCATTA
66 CACAGCTAGGCCATTA
* *
10231843 ATCTTTTACTCAAAGGTATTCAACCTTACATCTAACTGGCATAATTGACACCTTTCTGCCAAATG
1 ATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATG
10231908 CACAGCTAGGCCATTA
66 CACAGCTAGGCCATTA
* * *
10231924 ATCTTTTACTCAAAGGTATTCAACCTTTCATCTAACTGACATAATTGACACCTTTCTACCAAATG
1 ATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATG
*
10231989 CATAGCTAGGCCATTA
66 CACAGCTAGGCCATTA
* * * *
10232005 ATCTTTTACTCAGAGGTATTTAACCTTTCATCTAACTTGCATAATTGACACATTTCTGCAAAATG
1 ATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATG
*
10232070 CTCAGCTAGGCCATTA
66 CACAGCTAGGCCATTA
* *
10232086 ATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGAATAATTGACACCTTTCTACCAAATG
1 ATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATG
10232151 CACAGCTAGGCCATTA
66 CACAGCTAGGCCATTA
* *
10232167 ATCTTTTACTCAGAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATG
1 ATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATG
10232232 CACAGCTAGGCCATTA
66 CACAGCTAGGCCATTA
10232248 ATCTTT
1 ATCTTT
10232254 CATTTTGAAT
Statistics
Matches: 1094, Mismatches: 125, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
80 72 0.07
81 1022 0.93
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.34
Consensus pattern (81 bp):
ATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATG
CACAGCTAGGCCATTA
Found at i:10240425 original size:30 final size:30
Alignment explanation
Indices: 10240389--10240449 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
10240379 ATTAATATTA
10240389 TGCATCGATACGCTACAGTAACTACTACAG
1 TGCATCGATACGCTACAGTAACTACTACAG
*
10240419 TGCATCGATACGCTACAGTAACTGCTACAG
1 TGCATCGATACGCTACAGTAACTACTACAG
10240449 T
1 T
10240450 AATTTCAGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (30 bp):
TGCATCGATACGCTACAGTAACTACTACAG
Found at i:10243263 original size:18 final size:18
Alignment explanation
Indices: 10243240--10243281 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
10243230 ACAAGTGTGA
10243240 CTATTCCAAGACTTCTGC
1 CTATTCCAAGACTTCTGC
*
10243258 CTATTCCAAGACTTGTGC
1 CTATTCCAAGACTTCTGC
10243276 CTATTC
1 CTATTC
10243282 TAGATATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.31, G:0.12, T:0.36
Consensus pattern (18 bp):
CTATTCCAAGACTTCTGC
Found at i:10244618 original size:3 final size:3
Alignment explanation
Indices: 10244612--10244672 Score: 95
Period size: 3 Copynumber: 20.3 Consensus size: 3
10244602 TCTTCTTCTT
*
10244612 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTT
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC
* *
10244660 CTC ATT CTC CTC C
1 CTC CTC CTC CTC C
10244673 ATTTTCATCT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.02, C:0.62, G:0.00, T:0.36
Consensus pattern (3 bp):
CTC
Found at i:10244683 original size:15 final size:15
Alignment explanation
Indices: 10244621--10244685 Score: 51
Period size: 15 Copynumber: 4.3 Consensus size: 15
10244611 TCTCCTCCTC
* * *
10244621 CTCCTCCTCCTCCTC
1 CTCCTCCTTCTCATT
* * *
10244636 CTCCTCCTCCTCCTC
1 CTCCTCCTTCTCATT
10244651 CTCCTCCTTCTCATT
1 CTCCTCCTTCTCATT
*
10244666 CTCCTCCATTTTCA-T
1 CTCCTCC-TTCTCATT
10244681 CTCCT
1 CTCCT
10244686 TATGTTGATT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
15 40 0.89
16 5 0.11
ACGTcount: A:0.05, C:0.55, G:0.00, T:0.40
Consensus pattern (15 bp):
CTCCTCCTTCTCATT
Found at i:10245944 original size:26 final size:25
Alignment explanation
Indices: 10245897--10245945 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
10245887 AAATTTTATG
* *
10245897 TTAGGAGTGATTAACTTCTAAAATT
1 TTAGGAGTGATGAACTTATAAAATT
*
10245922 TTAGGAGGTGATGAATTTATAAAA
1 TTAGGA-GTGATGAACTTATAAAA
10245946 ATTCTAAGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 6 0.30
26 14 0.70
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.37
Consensus pattern (25 bp):
TTAGGAGTGATGAACTTATAAAATT
Found at i:10248714 original size:27 final size:27
Alignment explanation
Indices: 10248676--10248742 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
10248666 TGATTCAGTA
* *
10248676 CTGACTGATTCAGCACAGAAGTACATT
1 CTGAATGATTCAGCACAAAAGTACATT
* *
10248703 CTGAATGATTCACCACAAAAGTGCATT
1 CTGAATGATTCAGCACAAAAGTACATT
*
10248730 CTGAATAATTCAG
1 CTGAATGATTCAG
10248743 AATCATTATC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (27 bp):
CTGAATGATTCAGCACAAAAGTACATT
Found at i:10249845 original size:60 final size:58
Alignment explanation
Indices: 10249757--10249943 Score: 157
Period size: 60 Copynumber: 3.1 Consensus size: 58
10249747 GCATCATATG
* * * *
10249757 TCCTCAAACTATAACTCTTATTTCAAATTGGTCTTTAAA-TTTTCAAATGTTTCAATTTCA
1 TCCTCAAACTATGA-TCTCATTTTAAATTGATCTTTAAACTTTT-AAAT-TTTCAATTTCA
* *
10249817 TCCTCAAACTATGATTCTCATTTTAAATTAATCCTTAAACTTTTAAACATTTT-AATTTCA
1 TCCTCAAACTATGA-TCTCATTTTAAATTGATCTTTAAACTTTT-AA-ATTTTCAATTTCA
* * ** *
10249877 TCAAT-AAACTATGACCTC-TTTCTAAATTGATCTCCAAACTTTTAAATATTTCAATTTTA
1 TC-CTCAAACTATGATCTCATTT-TAAATTGATCTTTAAACTTTTAAAT-TTTCAATTTCA
*
10249936 TCCCCAAA
1 TCCTCAAA
10249944 TTCAACAAAA
Statistics
Matches: 103, Mismatches: 17, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
57 2 0.02
58 8 0.08
59 31 0.30
60 50 0.49
61 10 0.10
62 2 0.02
ACGTcount: A:0.34, C:0.20, G:0.03, T:0.43
Consensus pattern (58 bp):
TCCTCAAACTATGATCTCATTTTAAATTGATCTTTAAACTTTTAAATTTTCAATTTCA
Found at i:10249933 original size:59 final size:60
Alignment explanation
Indices: 10249796--10249933 Score: 149
Period size: 59 Copynumber: 2.3 Consensus size: 60
10249786 GGTCTTTAAA
* * * *
10249796 TTTTCAAATGTTTCAATTTCATCCTCAAACTATGATTCTCATTTTAAATTAATCCTTAAAC
1 TTTT-AAATATTTCAATTTCATCATCAAACTATGATCCTCATTTTAAATTAATCCTCAAAC
* * *
10249857 TTTTAAACATTTTAATTTCATCAAT-AAACTATGA-CCTC-TTTCTAAATTGAT-CTCCAAAC
1 TTTTAAATATTTCAATTTCATC-ATCAAACTATGATCCTCATTT-TAAATTAATCCT-CAAAC
10249916 TTTTAAATATTTCAATTT
1 TTTTAAATATTTCAATTT
10249934 TATCCCCAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
58 5 0.08
59 31 0.48
60 24 0.37
61 5 0.08
ACGTcount: A:0.34, C:0.18, G:0.03, T:0.45
Consensus pattern (60 bp):
TTTTAAATATTTCAATTTCATCATCAAACTATGATCCTCATTTTAAATTAATCCTCAAAC
Found at i:10250150 original size:61 final size:60
Alignment explanation
Indices: 10250074--10250202 Score: 163
Period size: 60 Copynumber: 2.1 Consensus size: 60
10250064 TATAGTCTGA
* * * *
10250074 GATGAAATTAGAATATTAAAATAGTTT-AGGGACCAATTTAGAATGA-AGATCATAGTTTGGG
1 GATGAAATCAAAATATTAAAA-AGTTTGA-AGACCAATTTAGAATGATAG-TCATAGTTTAGG
* *
10250135 GATGAAATCAAAATATTCAAAAGTTTGAAGACTAATTTAGAATGATAGTCATAGTTTAGG
1 GATGAAATCAAAATATTAAAAAGTTTGAAGACCAATTTAGAATGATAGTCATAGTTTAGG
10250195 GATGAAAT
1 GATGAAAT
10250203 TGAATCATTT
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
60 39 0.65
61 21 0.35
ACGTcount: A:0.43, C:0.05, G:0.21, T:0.31
Consensus pattern (60 bp):
GATGAAATCAAAATATTAAAAAGTTTGAAGACCAATTTAGAATGATAGTCATAGTTTAGG
Found at i:10261489 original size:24 final size:23
Alignment explanation
Indices: 10261443--10261494 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 23
10261433 TAAAAATTAA
*
10261443 ATAAATATTTTATAATATTTTTT
1 ATAAATATTTCATAATATTTTTT
*
10261466 ATAATTATTTCATATATATTTTTT
1 ATAAATATTTCATA-ATATTTTTT
10261490 ATAAA
1 ATAAA
10261495 AAATATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 12 0.48
24 13 0.52
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (23 bp):
ATAAATATTTCATAATATTTTTT
Found at i:10262031 original size:55 final size:55
Alignment explanation
Indices: 10261972--10262082 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
10261962 ATGTCACATA
*
10261972 AGCATTATCGTTAATCGTTTTTAAAAAATTAAAAATTTAAATACTAAAACGAAAC
1 AGCATTATCGTTAATCATTTTTAAAAAATTAAAAATTTAAATACTAAAACGAAAC
10262027 AGCATTATCGTTAATCATTTTTAAAAAATTAAAAATTTAAATACTAAAACGAAAC
1 AGCATTATCGTTAATCATTTTTAAAAAATTAAAAATTTAAATACTAAAACGAAAC
10262082 A
1 A
10262083 AAAGTGATAA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.32
Consensus pattern (55 bp):
AGCATTATCGTTAATCATTTTTAAAAAATTAAAAATTTAAATACTAAAACGAAAC
Found at i:10264874 original size:2 final size:2
Alignment explanation
Indices: 10264867--10264937 Score: 128
Period size: 2 Copynumber: 36.5 Consensus size: 2
10264857 CGAAATTGAC
10264867 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10264908 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10264938 GTTTAACAAA
Statistics
Matches: 67, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 2 0.03
2 65 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10265842 original size:43 final size:43
Alignment explanation
Indices: 10265781--10265866 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
10265771 AATAGCGGAC
10265781 GCTATTGCGTTTTCATCCTGCTATTTTAAACCCTAGATCCATA
1 GCTATTGCGTTTTCATCCTGCTATTTTAAACCCTAGATCCATA
10265824 GCTATTGCGTTTTCATCCTGCTATTTTAAACCCTAGATCCATA
1 GCTATTGCGTTTTCATCCTGCTATTTTAAACCCTAGATCCATA
10265867 TTAACTGCCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.40
Consensus pattern (43 bp):
GCTATTGCGTTTTCATCCTGCTATTTTAAACCCTAGATCCATA
Found at i:10270081 original size:26 final size:26
Alignment explanation
Indices: 10270045--10270103 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
10270035 TGGGTATTTA
10270045 GGTCATTCAGAACTCTAGGTTATCCT
1 GGTCATTCAGAACTCTAGGTTATCCT
*
10270071 GGTCATTCAGAACTTTAGGTTATCCT
1 GGTCATTCAGAACTCTAGGTTATCCT
10270097 GGTCATT
1 GGTCATT
10270104 TTAGGGTTCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.37
Consensus pattern (26 bp):
GGTCATTCAGAACTCTAGGTTATCCT
Found at i:10270243 original size:26 final size:26
Alignment explanation
Indices: 10270200--10270260 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
10270190 TTATTTCAAA
*
10270200 CAATTCAGACGTATATGGTACTTTCGG
1 CAATTCA-ACGTACATGGTACTTTCGG
*
10270227 TAATTCAACGTACATGGTACTTTCGG
1 CAATTCAACGTACATGGTACTTTCGG
10270253 CAATTCAA
1 CAATTCAA
10270261 TCTATGGGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
26 25 0.81
27 6 0.19
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.33
Consensus pattern (26 bp):
CAATTCAACGTACATGGTACTTTCGG
Found at i:10273020 original size:19 final size:19
Alignment explanation
Indices: 10272998--10273036 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
10272988 ATAAATAATG
10272998 TTTA-CTATATTGAAAAATA
1 TTTACCTATATT-AAAAATA
10273017 TTTACCTATATTAAAAATA
1 TTTACCTATATTAAAAATA
10273036 T
1 T
10273037 ATTTATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.44
Consensus pattern (19 bp):
TTTACCTATATTAAAAATA
Found at i:10273049 original size:19 final size:19
Alignment explanation
Indices: 10273027--10273076 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 19
10273017 TTTACCTATA
*
10273027 TTAAAAATATATTTATTTT
1 TTAAAAATATATTTATTAT
*
10273046 TTAAAAATA-A-ATATTAT
1 TTAAAAATATATTTATTAT
10273063 TTAAAAATAATATT
1 TTAAAAAT-ATATT
10273077 CTTTTGTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 13 0.52
18 2 0.08
19 10 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TTAAAAATATATTTATTAT
Found at i:10277189 original size:18 final size:17
Alignment explanation
Indices: 10277148--10277181 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10277138 CATTGGCGTT
*
10277148 ATATTAACGAATAATTG
1 ATATTAACGAATAATAG
10277165 ATATTAACGATATAATA
1 ATATTAACGA-ATAATA
10277182 AGTATTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (17 bp):
ATATTAACGAATAATAG
Found at i:10277287 original size:13 final size:13
Alignment explanation
Indices: 10277269--10277313 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
10277259 TAAATAATAA
*
10277269 AAAAAATTACAAT
1 AAAAAACTACAAT
* *
10277282 AAAAAAGTCCAAT
1 AAAAAACTACAAT
*
10277295 AAACAACTACAAT
1 AAAAAACTACAAT
10277308 AAAAAA
1 AAAAAA
10277314 GTACTAAATA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.69, C:0.13, G:0.02, T:0.16
Consensus pattern (13 bp):
AAAAAACTACAAT
Found at i:10277471 original size:15 final size:15
Alignment explanation
Indices: 10277453--10277484 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
10277443 ATCACCATCA
10277453 TCATCGTCGTCGTCG
1 TCATCGTCGTCGTCG
10277468 TCATCGTCGTCGTCG
1 TCATCGTCGTCGTCG
10277483 TC
1 TC
10277485 CTGAGCAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.34, G:0.25, T:0.34
Consensus pattern (15 bp):
TCATCGTCGTCGTCG
Found at i:10280259 original size:32 final size:33
Alignment explanation
Indices: 10280190--10280259 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 33
10280180 CAATTTTTAT
* * *
10280190 TAATATATATATAATAAAATACAACCAAATGTT
1 TAATATATATATAATAAAATACAAACAAATATC
* * *
10280223 TAATATTTATATAA-ATAATACAAAGAAATATC
1 TAATATATATATAATAAAATACAAACAAATATC
10280255 TAATA
1 TAATA
10280260 GCATCCAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
32 18 0.58
33 13 0.42
ACGTcount: A:0.56, C:0.07, G:0.03, T:0.34
Consensus pattern (33 bp):
TAATATATATATAATAAAATACAAACAAATATC
Found at i:10283296 original size:39 final size:39
Alignment explanation
Indices: 10283202--10283299 Score: 103
Period size: 38 Copynumber: 2.5 Consensus size: 39
10283192 GTTTTTACAT
* * * *
10283202 ATATAGTTTATATTAA-TAAATT-ATAAACTATATGGTTT
1 ATATAGTATATA-TAATTATATTAATAAACTATATAGTTC
* *
10283240 ATATAGTTTATATAATTATATTAATAAATTATATAGTTC
1 ATATAGTATATATAATTATATTAATAAACTATATAGTTC
10283279 AT-TAGTATATATAAATTATAT
1 ATATAGTATATAT-AATTATAT
10283300 ATTATATAGT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
37 3 0.06
38 26 0.50
39 23 0.44
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (39 bp):
ATATAGTATATATAATTATATTAATAAACTATATAGTTC
Found at i:10283306 original size:92 final size:92
Alignment explanation
Indices: 10283201--10283548 Score: 276
Period size: 92 Copynumber: 3.8 Consensus size: 92
10283191 GGTTTTTACA
*
10283201 TATATAGTTTATA-TTAATA-AAT-TATAAACTATATGGTTTATATAGTTTATATAATTATATTA
1 TATATA-TATATAGTTAATAGAATATATAAACTATATGGTTTAT-TAGTTTATAT-A-TATATT-
10283263 ATAAATTATATAGTTCATTAGTATATATAAAT
61 ATAAATTATATAGTTCATTAGTATATATAAAT
* * * *
10283295 TATATATTATATAGTTTATTA-ATATATATAAACTATA--GTTTATTA--ATATATATAAACTAT
1 TATATA-TATATAG-TTAATAGA-ATATATAAACTATATGGTTTATTAGTTTATATATATATTAT
*
10283355 ATAA-TATATAGTTCATTAGTATATATAGAT
63 A-AATTATATAGTTCATTAGTATATATAAAT
* * * ** * *
10283385 TATATGTTATACAATTAATTAGTAA-ATATAAACTATATAATTTATTAG--TAGATATAAATTAT
1 TATAT-ATATATAGTTAA-TAG-AATATATAAACTATATGGTTTATTAGTTTATATATATATTAT
* * *
10283447 ATATTATATGGTTCATTAGTATATATAAAC
63 AAATTATATAGTTCATTAGTATATATAAAT
* * *
10283477 TATATAATATATAGTTCATTAGTATATATAAACTATATGGTATA-TA-TTTAT-TATATATTAAT
1 TATAT-ATATATAGTT-AATAGAATATATAAACTATATGGTTTATTAGTTTATATATATATT-AT
*
10283539 ATATTATATA
63 AAATTATATA
10283549 TAAACTATGT
Statistics
Matches: 206, Mismatches: 30, Indels: 38
0.75 0.11 0.14
Matches are distributed among these distances:
89 3 0.01
90 52 0.25
91 18 0.09
92 89 0.43
93 6 0.03
94 11 0.05
95 2 0.01
96 12 0.06
97 2 0.01
98 11 0.05
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (92 bp):
TATATATATATAGTTAATAGAATATATAAACTATATGGTTTATTAGTTTATATATATATTATAAA
TTATATAGTTCATTAGTATATATAAAT
Found at i:10283307 original size:33 final size:33
Alignment explanation
Indices: 10283267--10283549 Score: 224
Period size: 33 Copynumber: 9.1 Consensus size: 33
10283257 ATATTAATAA
10283267 ATTATATAGTTCATTAGTATATATAAATTATAT
1 ATTATATAGTTCATTAGTATATATAAATTATAT
*
10283300 ATTATATAGTTTATTA--ATATAT--A-TA-A-
1 ATTATATAGTTCATTAGTATATATAAATTATAT
* * * *
10283326 A--CTATAGTTTATTAATATATATAAACTATAT
1 ATTATATAGTTCATTAGTATATATAAATTATAT
* *
10283357 AATATATAGTTCATTAGTATATATAGATTATAT
1 ATTATATAGTTCATTAGTATATATAAATTATAT
* * * * * *
10283390 GTTATACAATTAATTAGTAAATATAAA--CTAT
1 ATTATATAGTTCATTAGTATATATAAATTATAT
*
10283421 A-TA-AT--TT-ATTAGTAGATATAAATTATAT
1 ATTATATAGTTCATTAGTATATATAAATTATAT
* *
10283449 ATTATATGGTTCATTAGTATATATAAACTATAT
1 ATTATATAGTTCATTAGTATATATAAATTATAT
* *
10283482 AATATATAGTTCATTAGTATATATAAACTATAT
1 ATTATATAGTTCATTAGTATATATAAATTATAT
** * *
10283515 GGTATATA-TTTATTA-TATATTAATATATTATAT
1 ATTATATAGTTCATTAGTATA-T-ATAAATTATAT
10283548 AT
1 AT
10283550 AAACTATGTA
Statistics
Matches: 202, Mismatches: 30, Indels: 36
0.75 0.11 0.13
Matches are distributed among these distances:
24 12 0.06
26 21 0.10
27 3 0.01
28 7 0.03
29 6 0.03
30 5 0.02
31 14 0.07
32 9 0.04
33 125 0.62
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (33 bp):
ATTATATAGTTCATTAGTATATATAAATTATAT
Found at i:10283324 original size:26 final size:24
Alignment explanation
Indices: 10283295--10283349 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
10283285 ATATATAAAT
*
10283295 TATATATTATATAGTTTATTAATA
1 TATATAATATATAGTTTATTAATA
10283319 TATATAA-ACTATAGTTTATTAATA
1 TATATAATA-TATAGTTTATTAATA
10283343 TATATAA
1 TATATAA
10283350 ACTATATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 1 0.03
24 28 0.97
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (24 bp):
TATATAATATATAGTTTATTAATA
Found at i:10283331 original size:24 final size:24
Alignment explanation
Indices: 10283304--10283355 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
10283294 TTATATATTA
10283304 TATAGTTTATTAATATATATAAAC
1 TATAGTTTATTAATATATATAAAC
10283328 TATAGTTTATTAATATATATAAAC
1 TATAGTTTATTAATATATATAAAC
10283352 TATA
1 TATA
10283356 TAATATATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (24 bp):
TATAGTTTATTAATATATATAAAC
Found at i:10283432 original size:59 final size:59
Alignment explanation
Indices: 10283359--10283484 Score: 162
Period size: 59 Copynumber: 2.1 Consensus size: 59
10283349 AACTATATAA
* * * *
10283359 TATATAGTTCATTAGTATATATAGATTATATGTTATACAATTAATTAGTAAATATAAAC
1 TATATAATTCATTAGTAGATATAAATTATATATTATACAATTAATTAGTAAATATAAAC
* *** * *
10283418 TATATAATTTATTAGTAGATATAAATTATATATTATATGGTTCATTAGTATATATAAAC
1 TATATAATTCATTAGTAGATATAAATTATATATTATACAATTAATTAGTAAATATAAAC
10283477 TATATAAT
1 TATATAAT
10283485 ATATAGTTCA
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (59 bp):
TATATAATTCATTAGTAGATATAAATTATATATTATACAATTAATTAGTAAATATAAAC
Found at i:10283448 original size:26 final size:26
Alignment explanation
Indices: 10283391--10283449 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
10283381 AGATTATATG
*
10283391 TTATACAATTAATTAGTAAATATAAA
1 TTATATAATTAATTAGTAAATATAAA
* * *
10283417 CTATATAATTTATTAGTAGATATAAA
1 TTATATAATTAATTAGTAAATATAAA
10283443 TTATATA
1 TTATATA
10283450 TTATATGGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.42
Consensus pattern (26 bp):
TTATATAATTAATTAGTAAATATAAA
Found at i:10283514 original size:59 final size:59
Alignment explanation
Indices: 10283402--10283517 Score: 137
Period size: 59 Copynumber: 2.0 Consensus size: 59
10283392 TATACAATTA
* * * *
10283402 ATTAGTAAATATAAACTATATAATTTATTAGTAGATATAAATTATATATTATATGGTTC
1 ATTAGTAAATATAAACTATATAATATATTAGTACATATAAATTATAAACTATATGGTTC
* * *
10283461 ATTAGTATATATAAACTATATAATATA-TAGTTCAT-TAGTATATATAAACTATATGGT
1 ATTAGTAAATATAAACTATATAATATATTAGTACATATA-AAT-TATAAACTATATGGT
10283518 ATATATTTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
57 2 0.04
58 8 0.17
59 38 0.79
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (59 bp):
ATTAGTAAATATAAACTATATAATATATTAGTACATATAAATTATAAACTATATGGTTC
Found at i:10284303 original size:9 final size:9
Alignment explanation
Indices: 10284289--10284354 Score: 69
Period size: 9 Copynumber: 6.9 Consensus size: 9
10284279 GGCTGCTGGA
10284289 AACCGGTTT
1 AACCGGTTT
10284298 AACCGGTTT
1 AACCGGTTT
10284307 AACCGGTTTT
1 AACCGG-TTT
10284317 CAACCGGTTCT
1 -AACCGGTT-T
*
10284328 GACCGGTTT
1 AACCGGTTT
* *
10284337 GACCGATTT
1 AACCGGTTT
10284346 CAACCGGTT
1 -AACCGGTT
10284355 CGAATTGGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
9 24 0.49
10 18 0.37
11 7 0.14
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.32
Consensus pattern (9 bp):
AACCGGTTT
Found at i:10284323 original size:20 final size:20
Alignment explanation
Indices: 10284289--10284336 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
10284279 GGCTGCTGGA
10284289 AACCGG-TTTAACCGGTT-T
1 AACCGGTTTTAACCGGTTCT
10284307 AACCGGTTTTCAACCGGTTCT
1 AACCGGTTTT-AACCGGTTCT
*
10284328 GACCGGTTT
1 AACCGGTTT
10284337 GACCGATTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 6 0.23
19 3 0.12
20 8 0.31
21 9 0.35
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (20 bp):
AACCGGTTTTAACCGGTTCT
Found at i:10284334 original size:10 final size:9
Alignment explanation
Indices: 10284290--10284378 Score: 52
Period size: 9 Copynumber: 9.3 Consensus size: 9
10284280 GCTGCTGGAA
*
10284290 ACCGGTTTA
1 ACCGGTTTG
*
10284299 ACCGGTTTA
1 ACCGGTTTG
*
10284308 ACCGGTTTTCA
1 ACCGG-TTT-G
10284319 ACCGGTTCTG
1 ACCGGTT-TG
10284329 ACCGGTTTG
1 ACCGGTTTG
* *
10284338 ACCGATTTCA
1 ACCGGTTT-G
*
10284348 ACCGGTTCG
1 ACCGGTTTG
**
10284357 AATTGGTTTG
1 -ACCGGTTTG
*
10284367 ACCGGTCTG
1 ACCGGTTTG
10284376 ACC
1 ACC
10284379 CGACCGACCG
Statistics
Matches: 63, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
9 32 0.51
10 24 0.38
11 7 0.11
ACGTcount: A:0.18, C:0.26, G:0.25, T:0.31
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:10284346 original size:29 final size:30
Alignment explanation
Indices: 10284289--10284355 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 30
10284279 GGCTGCTGGA
*
10284289 AACCGGTT-TAACCGGTTTAACCGGTTTTC
1 AACCGGTTCTAACCGGTTTAACCGGATTTC
* *
10284318 AACCGGTTCTGACCGGTTTGACC-GATTTC
1 AACCGGTTCTAACCGGTTTAACCGGATTTC
10284347 AACCGGTTC
1 AACCGGTTC
10284356 GAATTGGTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 22 0.65
30 12 0.35
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.31
Consensus pattern (30 bp):
AACCGGTTCTAACCGGTTTAACCGGATTTC
Found at i:10284441 original size:22 final size:19
Alignment explanation
Indices: 10284375--10284435 Score: 78
Period size: 17 Copynumber: 3.5 Consensus size: 19
10284365 TGACCGGTCT
*
10284375 GACCCGACCG-ACCGACCC
1 GACCCGACCGTTCCGACCC
10284393 GACCCGACCGTT--GACCC
1 GACCCGACCGTTCCGACCC
10284410 GACCCGACCGTT--GACCC
1 GACCCGACCGTTCCGACCC
10284427 GACCCGACC
1 GACCCGACC
10284436 CGACCGGACC
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
17 31 0.76
18 10 0.24
ACGTcount: A:0.20, C:0.51, G:0.23, T:0.07
Consensus pattern (19 bp):
GACCCGACCGTTCCGACCC
Found at i:10284446 original size:5 final size:5
Alignment explanation
Indices: 10284375--10284445 Score: 65
Period size: 5 Copynumber: 13.8 Consensus size: 5
10284365 TGACCGGTCT
* *
10284375 GACCC GA-CC GA-CC GACCC GACCC GACCGTT GACCC GACCC GACCGTT
1 GACCC GACCC GACCC GACCC GACCC GACC--C GACCC GACCC GACC--C
*
10284422 GACCC GACCC GACCC GACCG GACC
1 GACCC GACCC GACCC GACCC GACC
10284446 GTTGACCGTT
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
4 8 0.14
5 40 0.71
7 8 0.14
ACGTcount: A:0.20, C:0.51, G:0.24, T:0.06
Consensus pattern (5 bp):
GACCC
Found at i:10284452 original size:17 final size:17
Alignment explanation
Indices: 10284388--10284435 Score: 96
Period size: 17 Copynumber: 2.8 Consensus size: 17
10284378 CCGACCGACC
10284388 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
10284405 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
10284422 GACCCGACCCGACC
1 GACCCGACCCGACC
10284436 CGACCGGACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.19, C:0.50, G:0.23, T:0.08
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:10284452 original size:22 final size:22
Alignment explanation
Indices: 10284386--10284452 Score: 84
Period size: 22 Copynumber: 3.0 Consensus size: 22
10284376 ACCCGACCGA
*
10284386 CCGACCCGACCCGACCGTTGAC
1 CCGACCCGACCGGACCGTTGAC
*
10284408 CCGACCCGACCGTTGACC--CGAC
1 CCGACCCGACCG--GACCGTTGAC
10284430 CCGACCCGACCGGACCGTTGAC
1 CCGACCCGACCGGACCGTTGAC
10284452 C
1 C
10284453 GTTGACTTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 4 0.11
22 30 0.79
24 4 0.11
ACGTcount: A:0.18, C:0.49, G:0.24, T:0.09
Consensus pattern (22 bp):
CCGACCCGACCGGACCGTTGAC
Found at i:10286031 original size:14 final size:15
Alignment explanation
Indices: 10286012--10286040 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
10286002 ATATATAAAG
10286012 TATATAT-TAAACTA
1 TATATATATAAACTA
10286026 TATATATATAAACTA
1 TATATATATAAACTA
10286041 GAGAAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (15 bp):
TATATATATAAACTA
Found at i:10286234 original size:21 final size:21
Alignment explanation
Indices: 10286208--10286262 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
10286198 TCTGGAATAA
*
10286208 ATCGCAACGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
*
10286229 ATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
10286250 ATCGCAATGCGAA
1 ATCGCAATGCGAA
10286263 TATGTAAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (21 bp):
ATCGCAATGCGAACTTCGACT
Found at i:10286296 original size:21 final size:20
Alignment explanation
Indices: 10286223--10286303 Score: 69
Period size: 21 Copynumber: 4.0 Consensus size: 20
10286213 AACGCGAACT
10286223 TCGACTATCGCAATGCGA-A
1 TCGACTATCGCAATGCGATA
*
10286242 CTTGGACTATCGCAATGCGAATA
1 --TCGACTATCGCAATGCG-ATA
*
10286265 T-GTA-AATCGCAATGCGATA
1 TCG-ACTATCGCAATGCGATA
*
10286284 GTCGACTATCGCATTGCGAT
1 -TCGACTATCGCAATGCGAT
10286304 TTACATATTC
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
19 3 0.06
20 14 0.28
21 31 0.62
22 1 0.02
23 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (20 bp):
TCGACTATCGCAATGCGATA
Found at i:10286343 original size:41 final size:42
Alignment explanation
Indices: 10286271--10286379 Score: 109
Period size: 41 Copynumber: 2.6 Consensus size: 42
10286261 AATATGTAAA
* * * *
10286271 TCGCAATGCGATAGTCG-ACTATCGCATTGCGATTTA-CATAT
1 TCGCATTGCGATAGTCGAAGT-TCGCACTGCGATTTATCAAAT
*
10286312 TCGCATTGCGATAGTCGAAGTTCGCGCTGCGATTTATTCCAAAT
1 TCGCATTGCGATAGTCGAAGTTCGCACTGCGATTTA-T-CAAAT
*
10286356 TCG--TTGCGATAGTCCAAGTTCGCA
1 TCGCATTGCGATAGTCGAAGTTCGCA
10286380 ACGACTGGTG
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
41 29 0.51
42 21 0.37
44 7 0.12
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (42 bp):
TCGCATTGCGATAGTCGAAGTTCGCACTGCGATTTATCAAAT
Found at i:10287177 original size:21 final size:21
Alignment explanation
Indices: 10287153--10287289 Score: 138
Period size: 21 Copynumber: 6.6 Consensus size: 21
10287143 TTTGGAATAA
*
10287153 ATCGCAACGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
*
10287174 ATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
*
10287195 ATCGCAATGCGAA-TAT-GTA-A
1 ATCGCAATGCGAACT-TCG-ACT
*
10287215 ATCGCAATGCGATA-GTCGACT
1 ATCGCAATGCGA-ACTTCGACT
*
10287236 ATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
* * *
10287257 ATCACAACGTGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
*
10287278 ATCGCATTGCGA
1 ATCGCAATGCGA
10287290 TTTACATATT
Statistics
Matches: 95, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
20 17 0.18
21 78 0.82
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (21 bp):
ATCGCAATGCGAACTTCGACT
Found at i:10287238 original size:62 final size:62
Alignment explanation
Indices: 10287125--10287265 Score: 189
Period size: 62 Copynumber: 2.3 Consensus size: 62
10287115 CGTTGCGATT
* *
10287125 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAATGCGAAC
1 TTGGACTATCGCAACGAATATGG-ATAAATCGCAACGCGAACGTCGACTATCGCAATGCGAAC
*
10287188 TTGGACTATCGCAATGCGAATAT-G-TAAATCGCAATGCGATA-GTCGACTATCGCAATGCGAAC
1 TTGGACTATCGCAA--CGAATATGGATAAATCGCAACGCGA-ACGTCGACTATCGCAATGCGAAC
*
10287250 TTGGACTATCACAACG
1 TTGGACTATCGCAACG
10287266 TGAACTTCGA
Statistics
Matches: 71, Mismatches: 4, Indels: 9
0.85 0.05 0.11
Matches are distributed among these distances:
60 2 0.03
62 47 0.66
63 15 0.21
64 1 0.01
65 6 0.08
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (62 bp):
TTGGACTATCGCAACGAATATGGATAAATCGCAACGCGAACGTCGACTATCGCAATGCGAAC
Found at i:10287324 original size:21 final size:21
Alignment explanation
Indices: 10287298--10287516 Score: 229
Period size: 21 Copynumber: 10.6 Consensus size: 21
10287288 GATTTACATA
10287298 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
10287319 TTCGCATTGCGATAG-CCAAAG
1 TTCGCATTGCGATAGTCC-AAG
10287340 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* *
10287361 TTCGCATTGCGATAGT-CGAC
1 TTCGCATTGCGATAGTCCAAG
* *
10287381 TATCGCATTGCGAT-TTACATA-
1 T-TCGCATTGCGATAGTCCA-AG
* * *
10287402 TTCACATTGCGATAGT-CGAC
1 TTCGCATTGCGATAGTCCAAG
* *
10287422 TATCGCATTGCGAT-TTACATA-
1 T-TCGCATTGCGATAGTCCA-AG
10287443 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
10287464 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* *
10287485 TTCGTATTGCGAT-GTCGAAG
1 TTCGCATTGCGATAGTCCAAG
*
10287505 TTCGCGTTGCGA
1 TTCGCATTGCGA
10287517 ATCTGGAAAC
Statistics
Matches: 170, Mismatches: 16, Indels: 25
0.81 0.08 0.12
Matches are distributed among these distances:
19 1 0.01
20 49 0.29
21 116 0.68
22 4 0.02
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:10287506 original size:41 final size:42
Alignment explanation
Indices: 10287298--10287516 Score: 245
Period size: 41 Copynumber: 5.3 Consensus size: 42
10287288 GATTTACATA
* *
10287298 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGCCAAAG
1 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAG
*
10287340 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCG-AC
1 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAG
* * * *
10287381 TATCGCATTGCGAT-TTACATA-TTCACATTGCGATAGTCG-AC
1 T-TCGCATTGCGATAGTCCA-AGTTCGCATTGCGATAGTCGAAG
* * *
10287422 TATCGCATTGCGAT-TTACATA-TTCGCATTGCGATAGTCCAAG
1 T-TCGCATTGCGATAGTCCA-AGTTCGCATTGCGATAGTCGAAG
*
10287464 TTCGCATTGCGATAGTCCAAGTTCGTATTGCGAT-GTCGAAG
1 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAG
*
10287505 TTCGCGTTGCGA
1 TTCGCATTGCGA
10287517 ATCTGGAAAC
Statistics
Matches: 158, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
41 91 0.58
42 67 0.42
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (42 bp):
TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAG
Found at i:10287687 original size:22 final size:22
Alignment explanation
Indices: 10287662--10287814 Score: 112
Period size: 22 Copynumber: 7.3 Consensus size: 22
10287652 TTATTTTCTC
*
10287662 TATAAACTATATAGTTTATATA
1 TATAAATTATATAGTTTATATA
*
10287684 TAT-AGTATATATAGTTTAT-TAA
1 TATAAAT-TATATAGTTTATAT-A
10287706 TATAAATTATATAG-TT-TATA
1 TATAAATTATATAGTTTATATA
**
10287726 TATAAATTATATA-TGAACTATA
1 TATAAATTATATAGTTTA-TATA
* * *
10287748 TATAAATTATACAATTTATATT
1 TATAAATTATATAGTTTATATA
* *
10287770 TATATA-T-TAT-GTGTA-AT-
1 TATAAATTATATAGTTTATATA
10287787 TATAAATTATATAGTTTAT-TAA
1 TATAAATTATATAGTTTATAT-A
10287809 TATAAA
1 TATAAA
10287815 CTAAATTATA
Statistics
Matches: 102, Mismatches: 15, Indels: 28
0.70 0.10 0.19
Matches are distributed among these distances:
17 5 0.05
18 3 0.03
19 6 0.06
20 22 0.22
21 6 0.06
22 56 0.55
23 4 0.04
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (22 bp):
TATAAATTATATAGTTTATATA
Found at i:10287717 original size:44 final size:42
Alignment explanation
Indices: 10287662--10287812 Score: 145
Period size: 42 Copynumber: 3.7 Consensus size: 42
10287652 TTATTTTCTC
* *
10287662 TATAAACTATATAGTTTATATATATAGTATATATAGTTTATTAA
1 TATAAATTATATAGTTTATATATATA-TATATATAGTGTA-TAA
* *
10287706 TATAAATTATATAGTTTATATATAAAT-TATATA-TGAACTATA
1 TATAAATTATATAGTTTATATATATATATATATAGTGTA-TA-A
* * * *
10287748 TATAAATTATACAATTTATATTTATATAT-TAT-GTGTA-AT
1 TATAAATTATATAGTTTATATATATATATATATAGTGTATAA
10287787 TATAAATTATATAGTTTAT-TA-ATATA
1 TATAAATTATATAGTTTATATATATATA
10287813 AACTAAATTA
Statistics
Matches: 90, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
37 5 0.06
38 1 0.01
39 17 0.19
40 1 0.01
41 4 0.04
42 36 0.40
43 2 0.02
44 24 0.27
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.48
Consensus pattern (42 bp):
TATAAATTATATAGTTTATATATATATATATATAGTGTATAA
Found at i:10287885 original size:2 final size:2
Alignment explanation
Indices: 10287873--10288195 Score: 160
Period size: 2 Copynumber: 153.0 Consensus size: 2
10287863 ATATGCAGTT
* *
10287873 TA TA TA CA TA TA TA AA TGA TA TA TA CTA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA T-A TA TA TA -TA TA TA TA TA TA TA TA TA
* * *
10287917 TA AA CTA TA TA CTA TA TA TA CTA TA TA CTA TA GTT TA TA TT TA TA
1 TA TA -TA TA TA -TA TA TA TA -TA TA TA -TA TA -TA TA TA TA TA TA
* * *
10287962 TA CTA TA TA -A TA TA TA TA GTT TA CA T- TA T- TA CA TA TGA -A
1 TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA T-A TA
* * * *
10288001 CTA TA TA TA TA AA CTA TA TA AA CTA TA T- TT TA TA TT TA TA TA
1 -TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
* * *
10288043 CTG TA TA CTA TA GT- TGA TA TT TA TA TA CTA TA TA T- TA TG TA TA
1 -TA TA TA -TA TA -TA T-A TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * *
10288086 TA AA CTA TA TA TA CTA TA TA GTT TA CA TA TGA -A CTA TA TA TA TA
1 TA TA -TA TA TA TA -TA TA TA -TA TA TA TA T-A TA -TA TA TA TA TA
* *
10288130 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA CTA TA GTT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA -TA
*
10288174 TA TA TA TA AA T- TA TA TA CTA TA
1 TA TA TA TA TA TA TA TA TA -TA TA
10288196 GTTGATATTT
Statistics
Matches: 245, Mismatches: 41, Indels: 70
0.69 0.12 0.20
Matches are distributed among these distances:
1 9 0.04
2 200 0.82
3 36 0.15
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:10287961 original size:27 final size:27
Alignment explanation
Indices: 10287931--10288076 Score: 117
Period size: 27 Copynumber: 5.5 Consensus size: 27
10287921 CTATATACTA
10287931 TATATACTATATACTATAGTTTATATT
1 TATATACTATATACTATAGTTTATATT
*
10287958 TATATACTATATA--ATA-TATATAGTT
1 TATATACTATATACTATAGTTTATA-TT
* ** *
10287983 TACAT--TAT-TAC-ATATGAACTATATA
1 TATATACTATATACTATA-G-TTTATATT
* *
10288008 TATAAACTATATAAACTATATTTTATATT
1 TATATACTATAT--ACTATAGTTTATATT
* *
10288037 TATATACTGTATACTATAGTTGATATT
1 TATATACTATATACTATAGTTTATATT
10288064 TATATACTATATA
1 TATATACTATATA
10288077 TTATGTATAT
Statistics
Matches: 92, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
22 2 0.02
23 6 0.07
24 5 0.05
25 13 0.14
26 4 0.04
27 41 0.45
28 1 0.01
29 15 0.16
30 2 0.02
31 3 0.03
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.47
Consensus pattern (27 bp):
TATATACTATATACTATAGTTTATATT
Found at i:10287975 original size:20 final size:20
Alignment explanation
Indices: 10287873--10288745 Score: 159
Period size: 20 Copynumber: 43.3 Consensus size: 20
10287863 ATATGCAGTT
10287873 TATATACATATATAA-ATGATA
1 TATATAC-TATATAATAT-ATA
10287894 TATACTA-TATATATATATATA
1 TATA-TACTATATA-ATATATA
*
10287915 TATAAACTATATACTATATATA
1 TATATACTATATA--ATATATA
* *
10287937 CTATATACTATAGT-TTATATT
1 -TATATACTATA-TAATATATA
10287958 TATATACTATATAATATATA
1 TATATACTATATAATATATA
* *
10287978 TAGTTTAC-AT-T-AT-TACA
1 TA-TATACTATATAATATATA
*
10287995 TATGA-ACTATATATATAAACTA
1 TAT-ATACTATATA-ATATA-TA
* ** *
10288017 TATAAACTATATTTTATATT
1 TATATACTATATAATATATA
*
10288037 TATATACTGTATACTATAGTTGATATT
1 TATATAC--TATA-TA-A--T-ATATA
* *
10288064 TATATACTATATATTATGTA
1 TATATACTATATAATATATA
*
10288084 TATAAACTATAT-ATACTATA
1 TATATACTATATAATA-TATA
*
10288104 TAGTTTAC-ATATGAACTATATA
1 TA-TATACTATAT-AA-TATATA
10288126 TATATA-TATAT-ATATATA
1 TATATACTATATAATATATA
10288144 TATATA-TATATATATATATA
1 TATATACTATATA-ATATATA
* * * *
10288164 AACTATAGTTTAT-ATATAAA
1 TA-TATACTATATAATATATA
*
10288184 TTATATACTATAGT--TGATATT
1 -TATATACTATA-TAAT-ATATA
* *
10288205 TATATATTTTATAATATAGT-
1 TATATACTATATAATATA-TA
* **
10288225 TGATAT-TTATATACCATAT-
1 T-ATATACTATATAATATATA
* * * *
10288244 TATATAGTTTATACTTATACAA
1 TATATACTATATA-ATATA-TA
* * *
10288266 TTTATACTATATAAATTTAAA
1 TATATACTATAT-AATATATA
*
10288287 GTATATACTATAT-GTATGA-A
1 -TATATACTATATAATAT-ATA
*
10288307 TACTATA-TAGT-TAA-ATACA
1 TA-TATACTA-TATAATATATA
* *
10288326 T-TA-ATTA-ATAA-ACTATT
1 TATATACTATATAATA-TATA
* * * *
10288343 TGTATAGTATATACTACATA
1 TATATACTATATAATATATA
*
10288363 TATAAACTATATACACTATATA
1 TATATACTATATA-A-TATATA
10288385 GT-T-TAC-ATATGAACTATATA
1 -TATATACTATAT-AA-TATATA
* *
10288405 TAAAAACTATAT-ATATATA
1 TATATACTATATAATATATA
*
10288424 TATATA-TATA-AACTATGTA
1 TATATACTATATAA-TATATA
* * * *
10288443 AACTATAATTTAT-ATATAAA
1 TA-TATACTATATAATATATA
* * *
10288463 CTATATACTATA-ATTGAAATT
1 -TATATACTATATAAT-ATATA
10288484 TATATACTATATAATATATA
1 TATATACTATATAATATATA
*
10288504 TAGTTTAC-ATATGAATTATATA
1 TA-TATACTATAT-AA-TATATA
* *
10288526 TATAAACTAGATAA-ACTATA
1 TATATACTATATAATA-TATA
* * *
10288546 TAGTTTAC-ATATGAA-CTATG
1 TA-TATACTATAT-AATATATA
10288566 TA-A-ACTAT-T--TATATA
1 TATATACTATATAATATATA
*
10288581 GTATGTACTATAT-ATATATA
1 -TATATACTATATAATATATA
*
10288601 AACTATA-TATATAA-AT-TA
1 TA-TATACTATATAATATATA
* *
10288619 TA-AT-TTATAT-TTATATA
1 TATATACTATATAATATATA
*
10288636 CTATATACTATAGT--TGATATT
1 -TATATACTATA-TAAT-ATATA
* *
10288657 TATATACTATATATTATGTA
1 TATATACTATATAATATATA
*
10288677 TATAAACTATAT-ATATTATA
1 TATATACTATATAATA-TATA
*
10288697 TAGTTTAC-ATATGAACTATATA
1 TA-TATACTATAT-AA-TATATA
* *
10288719 TAAAAACTATATAA-ACTATA
1 TATATACTATATAATA-TATA
10288739 TACTATA
1 TA-TATA
10288746 GTTGAGCTAT
Statistics
Matches: 627, Mismatches: 116, Indels: 218
0.65 0.12 0.23
Matches are distributed among these distances:
15 3 0.00
16 19 0.03
17 19 0.03
18 44 0.07
19 58 0.09
20 247 0.39
21 107 0.17
22 93 0.15
23 17 0.03
24 3 0.00
25 4 0.01
26 1 0.00
27 12 0.02
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (20 bp):
TATATACTATATAATATATA
Found at i:10288208 original size:27 final size:27
Alignment explanation
Indices: 10288160--10288276 Score: 98
Period size: 27 Copynumber: 4.4 Consensus size: 27
10288150 TATATATATA
* *
10288160 TATAAACTATAGTT--TATATATAAAT
1 TATATACTATAGTTGATATTTATAAAT
*
10288185 TATATACTATAGTTGATATTTATATAT
1 TATATACTATAGTTGATATTTATAAAT
* * * *
10288212 TTTATAATATAGTTGATATTTATATAC
1 TATATACTATAGTTGATATTTATAAAT
* * *
10288239 CATATTA-TATAGTTTATACTTATACAAT
1 TATA-TACTATAGTTGATATTTATA-AAT
10288267 T-TATACTATA
1 TATATACTATA
10288277 TAAATTTAAA
Statistics
Matches: 74, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
25 13 0.18
26 2 0.03
27 56 0.76
28 3 0.04
ACGTcount: A:0.40, C:0.06, G:0.05, T:0.49
Consensus pattern (27 bp):
TATATACTATAGTTGATATTTATAAAT
Found at i:10288269 original size:15 final size:15
Alignment explanation
Indices: 10288251--10288284 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
10288241 TATTATATAG
10288251 TTTATACT-TATACAA
1 TTTATACTATATA-AA
10288266 TTTATACTATATAAA
1 TTTATACTATATAAA
10288281 TTTA
1 TTTA
10288285 AAGTATATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTATACTATATAAA
Found at i:10288431 original size:25 final size:26
Alignment explanation
Indices: 10288399--10288745 Score: 96
Period size: 27 Copynumber: 12.9 Consensus size: 26
10288389 ACATATGAAC
*
10288399 TATATATAAAAACTATATATATAT-A
1 TATATATATAAACTATATATATATAA
* *
10288424 TATATATATAAACTATGTAAACTATAA
1 TATATATATAAACTATATATA-TATAA
* *
10288451 TTTATATATAAACTATATACTATA-AT
1 TATATATATAAACTATATA-TATATAA
* * *
10288477 TGAAATTTATATACTATATAATATATATA
1 T-ATATATATAAACTATAT-ATATATA-A
* * *
10288506 GTTTACATATGAA-T-TATATATATAA
1 -TATATATATAAACTATATATATATAA
* *
10288531 -A-CTAGATAAACTATATAGT-T-TACA
1 TATATATATAAACTATATA-TATATA-A
*
10288555 TATGAACTATGTAAACTATTTATATAGTATGTACTA
1 TAT--A-TATATAAACTA--TATATA-TA--TA--A
10288591 TATATATATAAACTATATATATA-AA
1 TATATATATAAACTATATATATATAA
* ** *
10288616 T-TATAATTTATATTTATATACTATATAC
1 TATAT-ATATA-AACTATATA-TATATAA
** *
10288644 TATAGT-TGAT-ATTTATATACTATATAT
1 TATA-TAT-ATAAACTATATA-TATATAA
*
10288671 TATGTATATAAACTATATATATTATATA
1 TATATATATAAACTATATATA-TATA-A
* * *
10288699 GTTTACATATGAACTATATATA-A-AA
1 -TATATATATAAACTATATATATATAA
*
10288724 -A-CTATATAAACTATATACTATA
1 TATATATATAAACTATATA-TATA
10288746 GTTGAGCTAT
Statistics
Matches: 237, Mismatches: 46, Indels: 79
0.65 0.13 0.22
Matches are distributed among these distances:
22 18 0.08
23 5 0.02
24 10 0.04
25 28 0.12
26 25 0.11
27 77 0.32
28 7 0.03
29 34 0.14
30 5 0.02
31 10 0.04
32 1 0.00
33 10 0.04
34 1 0.00
35 2 0.01
36 4 0.02
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (26 bp):
TATATATATAAACTATATATATATAA
Found at i:10288594 original size:2 final size:2
Alignment explanation
Indices: 10288575--10288698 Score: 60
Period size: 2 Copynumber: 60.0 Consensus size: 2
10288565 GTAAACTATT
* * *
10288575 TA TA TA GTA TG TA CTA TA TA TA TA TA AA CTA TA TA TA TA AA T-
1 TA TA TA -TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * *
10288617 TA TA -A TT TA TA TT TA TA TA CTA TA TA CTA TA GT- TGA TA TT TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA -TA T-A TA TA TA
* *
10288659 TA TA CTA TA TA T- TA TG TA TA TA AA CTA TA TA TA T- TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
10288699 GTTTACATAT
Statistics
Matches: 92, Mismatches: 16, Indels: 28
0.68 0.12 0.21
Matches are distributed among these distances:
1 5 0.05
2 73 0.79
3 14 0.15
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.48
Consensus pattern (2 bp):
TA
Found at i:10288620 original size:11 final size:13
Alignment explanation
Indices: 10288591--10288731 Score: 54
Period size: 13 Copynumber: 10.5 Consensus size: 13
10288581 GTATGTACTA
10288591 TATATATATAAAC
1 TATATATATAAAC
*
10288604 TATATATATAAAT
1 TATATATATAAAC
* **
10288617 TATA-ATTTATATT
1 TATATATATA-AAC
*
10288630 TATATACTATATAC
1 TATATA-TATAAAC
**
10288644 TATAGT-TGAT-ATT
1 TATA-TAT-ATAAAC
* *
10288657 TATATACTATATAT
1 TATATA-TATAAAC
*
10288671 TATGTATATAAAC
1 TATATATATAAAC
*
10288684 TATATATATTATATAG
1 TATATATA-TA-A-AC
* * *
10288700 TTTACATATGAAC
1 TATATATATAAAC
*
10288713 TATATATAAAAAC
1 TATATATATAAAC
10288726 TATATA
1 TATATA
10288732 AACTATATAC
Statistics
Matches: 92, Mismatches: 25, Indels: 22
0.66 0.18 0.16
Matches are distributed among these distances:
12 5 0.05
13 57 0.62
14 17 0.18
15 6 0.07
16 7 0.08
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (13 bp):
TATATATATAAAC
Found at i:10288640 original size:27 final size:27
Alignment explanation
Indices: 10288604--10288673 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
10288594 ATATATAAAC
* *
10288604 TATATA-TATAAATTATAATTTATATT
1 TATATACTATATATTATAATTGATATT
* *
10288630 TATATACTATATACTATAGTTGATATT
1 TATATACTATATATTATAATTGATATT
10288657 TATATACTATATATTAT
1 TATATACTATATATTAT
10288674 GTATATAAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
26 6 0.16
27 32 0.84
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.51
Consensus pattern (27 bp):
TATATACTATATATTATAATTGATATT
Found at i:10288689 original size:29 final size:29
Alignment explanation
Indices: 10288657--10288720 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
10288647 AGTTGATATT
**
10288657 TATATACTATATA-TTATGTATATAAACTA
1 TATATACTATATAGTT-TACATATAAACTA
* *
10288686 TATATATTATATAGTTTACATATGAACTA
1 TATATACTATATAGTTTACATATAAACTA
10288715 TATATA
1 TATATA
10288721 AAAACTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 28 0.93
30 2 0.07
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (29 bp):
TATATACTATATAGTTTACATATAAACTA
Found at i:10290375 original size:21 final size:21
Alignment explanation
Indices: 10290349--10290484 Score: 156
Period size: 21 Copynumber: 6.6 Consensus size: 21
10290339 GTTTCCAAAT
*
10290349 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
*
10290370 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTCGACTA
*
10290391 TCGCAATGCG-A-TAT-GTA-AA
1 TCGCAATGCGAACT-TCG-ACTA
*
10290410 TCGCAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTCGACTA
*
10290431 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTCGACTA
*
10290452 TCGCAATGCGAACTTCTACTA
1 TCGCAATGCGAACTTCGACTA
10290473 TCGCAATGCGAA
1 TCGCAATGCGAA
10290485 TATGTAAATC
Statistics
Matches: 99, Mismatches: 9, Indels: 14
0.81 0.07 0.11
Matches are distributed among these distances:
19 13 0.13
20 6 0.06
21 80 0.81
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (21 bp):
TCGCAATGCGAACTTCGACTA
Found at i:10290445 original size:82 final size:83
Alignment explanation
Indices: 10290349--10290510 Score: 281
Period size: 82 Copynumber: 2.0 Consensus size: 83
10290339 GTTTCCAAAT
*
10290349 TCGCAACGCGAACTTCGACTATCGCAATGCGAACTTGGACTATCGCAATGCG-ATATGTAAATCG
1 TCGCAACGCGAACTTCGACTATCGCAATGCGAACTTCGACTATCGCAATGCGAATATGTAAATCG
10290413 CAATGCGATAGTCGACTA
66 CAATGCGATAGTCGACTA
* * *
10290431 TCGCAATGCGAACTTGGACTATCGCAATGCGAACTTCTACTATCGCAATGCGAATATGTAAATCG
1 TCGCAACGCGAACTTCGACTATCGCAATGCGAACTTCGACTATCGCAATGCGAATATGTAAATCG
10290496 CAATGCGATAGTCGA
66 CAATGCGATAGTCGA
10290511 AGTTCGCATT
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
82 48 0.64
83 27 0.36
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (83 bp):
TCGCAACGCGAACTTCGACTATCGCAATGCGAACTTCGACTATCGCAATGCGAATATGTAAATCG
CAATGCGATAGTCGACTA
Found at i:10290523 original size:21 final size:21
Alignment explanation
Indices: 10290493--10290678 Score: 202
Period size: 21 Copynumber: 8.9 Consensus size: 21
10290483 AATATGTAAA
* *
10290493 TCGCAATGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGT
10290514 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
*
10290535 TCGCGTTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
* *
10290556 TCGCATTGCGATAGT-CGACT
1 TCGCATTGCGATAGTCCAAGT
* *
10290576 ATCGCATTGCGAT-TTACATA-T
1 -TCGCATTGCGATAGTCCA-AGT
10290597 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
*
10290618 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGT
* * *
10290639 TCGCGTTGCGATTTATTCCAAAT
1 TCGCATTGCGA--TAGTCCAAGT
10290662 TCG--TTGCGATAGTCCAA
1 TCGCATTGCGATAGTCCAA
10290679 AATCGCAACG
Statistics
Matches: 142, Mismatches: 16, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
19 7 0.05
20 17 0.12
21 107 0.75
22 1 0.01
23 10 0.07
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.31
Consensus pattern (21 bp):
TCGCATTGCGATAGTCCAAGT
Found at i:10290560 original size:83 final size:82
Alignment explanation
Indices: 10290473--10290642 Score: 204
Period size: 83 Copynumber: 2.0 Consensus size: 82
10290463 ACTTCTACTA
10290473 TCGCAATGCGAATATGT-A-AATCGCAATGCGATAGT-CGA-AGTTCGCATTGCGATAGTCCAAG
1 TCGCAATGCG-ATA-GTCACAATCGCAATGCGAT-GTAC-ATA-TTCGCATTGCGATAGTCCAAG
*
10290534 TTCGCGTTGCGATAGTCCAAGT
61 TTCGCATTGCGATAGTCCAAGT
* * * *
10290556 TCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCG
1 TCGCAATGCGATAGTC-ACAATCGCAATGCGATGTACATATTCGCATTGCGATAGTCCAAGTTCG
*
10290621 CATTGCGATAGTCGAAGT
65 CATTGCGATAGTCCAAGT
10290639 TCGC
1 TCGC
10290643 GTTGCGATTT
Statistics
Matches: 76, Mismatches: 6, Indels: 10
0.83 0.07 0.11
Matches are distributed among these distances:
81 2 0.03
82 3 0.04
83 57 0.75
84 14 0.18
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (82 bp):
TCGCAATGCGATAGTCACAATCGCAATGCGATGTACATATTCGCATTGCGATAGTCCAAGTTCGC
ATTGCGATAGTCCAAGT
Found at i:10290560 original size:104 final size:104
Alignment explanation
Indices: 10290452--10290650 Score: 271
Period size: 104 Copynumber: 1.9 Consensus size: 104
10290442 ACTTGGACTA
* * *
10290452 TCGCAATGCGA-ACTTCTACTATCGCAATGCGAATATGTA-A-A-TCGCAATGCGATAGTCGAAG
1 TCGCAATGCGATA-GTCGACTATCGCAATGCG-AT-T-TACATATTCGCAATGCGATAGTCCAAG
10290513 TTCGCATTGCGATAGTCCAAGTTCGCGTTGCGATAGTCCAAGT
62 TTCGCATTGCGATAGTCCAAGTTCGCGTTGCGATAGTCCAAGT
* * *
10290556 TCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCG
1 TCGCAATGCGATAGTCGACTATCGCAATGCGATTTACATATTCGCAATGCGATAGTCCAAGTTCG
*
10290621 CATTGCGATAGTCGAAGTTCGCGTTGCGAT
66 CATTGCGATAGTCCAAGTTCGCGTTGCGAT
10290651 TTATTCCAAA
Statistics
Matches: 84, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
101 2 0.02
102 2 0.02
103 3 0.04
104 76 0.90
105 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (104 bp):
TCGCAATGCGATAGTCGACTATCGCAATGCGATTTACATATTCGCAATGCGATAGTCCAAGTTCG
CATTGCGATAGTCCAAGTTCGCGTTGCGATAGTCCAAGT
Found at i:10290684 original size:104 final size:103
Alignment explanation
Indices: 10290493--10290685 Score: 280
Period size: 104 Copynumber: 1.9 Consensus size: 103
10290483 AATATGTAAA
* *
10290493 TCGCAATGCGATAGTCGAAGTTCGCATTGCGATAGTCCAAGTTCGCGTTGCGATAGTCCAAGTTC
1 TCGCAATGCGATAGTCCAAGTTCGCATTGCGATAGTCCAAGTTCGCGTTGCGATAGTCCAAATTC
* **
10290558 GCATTGCGATAGTCGACTATCGCATTGCGATTTACATAT
66 G-ATTGCGATAGTCCAAAATCGCATTGCGATTTACATAT
* * *
10290597 TCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAAT
1 TCGCAATGCGATAGTCCAAGTTCGCATTGCGATAGTCCAAGTTCGCGTTGCGA--TAGTCCAAAT
10290662 TCG-TTGCGATAGTCCAAAATCGCA
64 TCGATTGCGATAGTCCAAAATCGCA
10290686 ACGACTGGTG
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
104 68 0.86
106 11 0.14
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.30
Consensus pattern (103 bp):
TCGCAATGCGATAGTCCAAGTTCGCATTGCGATAGTCCAAGTTCGCGTTGCGATAGTCCAAATTC
GATTGCGATAGTCCAAAATCGCATTGCGATTTACATAT
Found at i:10291254 original size:5 final size:5
Alignment explanation
Indices: 10291244--10291268 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
10291234 CCGCCGTCTT
10291244 TCTCG TCTCG TCTCG TCTCG TCTCG
1 TCTCG TCTCG TCTCG TCTCG TCTCG
10291269 GGTCGGGTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.40, G:0.20, T:0.40
Consensus pattern (5 bp):
TCTCG
Found at i:10291436 original size:21 final size:21
Alignment explanation
Indices: 10291412--10291569 Score: 198
Period size: 21 Copynumber: 7.6 Consensus size: 21
10291402 TTTGGAATAA
*
10291412 ATCGCAACGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
10291433 ATCGCAATGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
10291454 ATCGCAATGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
*
10291475 ATCGCAATGCGAA-TAT-GTA-A
1 ATCGCAATGCGAACT-TCG-ACT
*
10291495 ATCGCAATGCGATAGTT-GACT
1 ATCGCAATGCGA-ACTTCGACT
*
10291516 ATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
* *
10291537 ATCACAACGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
*
10291558 ATCGCATTGCGA
1 ATCGCAATGCGA
10291570 TTTACATATT
Statistics
Matches: 121, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
20 18 0.15
21 102 0.84
22 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.23
Consensus pattern (21 bp):
ATCGCAATGCGAACTTCGACT
Found at i:10291522 original size:62 final size:62
Alignment explanation
Indices: 10291433--10291549 Score: 182
Period size: 62 Copynumber: 1.9 Consensus size: 62
10291423 AACTTCGACT
* *
10291433 ATCGCAATGCGAACTTCGACTATCGCAATGCGAACTTCGACTATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAACTTCGACTATCGCAATGCGAACTTCGACTATCACAACGCGAATATGTAA
* *
10291495 ATCGCAATGCGATAGTT-GACTATCGCAATGCGAACTTGGACTATCACAACGCGAA
1 ATCGCAATGCGA-ACTTCGACTATCGCAATGCGAACTTCGACTATCACAACGCGAA
10291550 CTTCGACTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
62 47 0.94
63 3 0.06
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (62 bp):
ATCGCAATGCGAACTTCGACTATCGCAATGCGAACTTCGACTATCACAACGCGAATATGTAA
Found at i:10291583 original size:62 final size:61
Alignment explanation
Indices: 10291416--10291589 Score: 169
Period size: 62 Copynumber: 2.8 Consensus size: 61
10291406 GAATAAATCG
* *
10291416 CAACGCGAACTTCGACTATCGCAATGCGAACTT-CGACTATCGCAATGCGAACTTCGACTATCG
1 CAACGCGAACTTCGACTATCGCAATGCG-ATTTAC-A-TATCGCAATGCGAACTTCGACTATCA
* * *
10291479 CAATGCGAA-TAT-GTA-AATCGCAATGCGATAGTTGAC-TATCGCAATGCGAACTTGGACTATC
1 CAACGCGAACT-TCG-ACTATCGCAATGCGAT--TT-ACATATCGCAATGCGAACTTCGACTATC
10291540 A
61 A
* *
10291541 CAACGCGAACTTCGACTATCGCATTGCGATTTACATATTCGCATTGCGA
1 CAACGCGAACTTCGACTATCGCAATGCGATTTACATA-TCGCAATGCGA
10291590 TAGTCCAAGT
Statistics
Matches: 91, Mismatches: 9, Indels: 23
0.74 0.07 0.19
Matches are distributed among these distances:
60 2 0.02
61 5 0.05
62 57 0.63
63 26 0.29
65 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (61 bp):
CAACGCGAACTTCGACTATCGCAATGCGATTTACATATCGCAATGCGAACTTCGACTATCA
Found at i:10291593 original size:83 final size:83
Alignment explanation
Indices: 10291409--10291569 Score: 252
Period size: 83 Copynumber: 1.9 Consensus size: 83
10291399 GAATTTGGAA
* * * *
10291409 TAAATCGCAACGCGA-ACTTCGACTATCGCAATGCGAACTTCGACTATCGCAATGCGAACTTCGA
1 TAAATCGCAATGCGATAGTT-GACTATCGCAATGCGAACTTCGACTATCACAACGCGAACTTCGA
10291473 CTATCGCAATGCGAATATG
65 CTATCGCAATGCGAATATG
*
10291492 TAAATCGCAATGCGATAGTTGACTATCGCAATGCGAACTTGGACTATCACAACGCGAACTTCGAC
1 TAAATCGCAATGCGATAGTTGACTATCGCAATGCGAACTTCGACTATCACAACGCGAACTTCGAC
*
10291557 TATCGCATTGCGA
66 TATCGCAATGCGA
10291570 TTTACATATT
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
83 68 0.96
84 3 0.04
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (83 bp):
TAAATCGCAATGCGATAGTTGACTATCGCAATGCGAACTTCGACTATCACAACGCGAACTTCGAC
TATCGCAATGCGAATATG
Found at i:10291604 original size:21 final size:21
Alignment explanation
Indices: 10291578--10291778 Score: 237
Period size: 21 Copynumber: 9.6 Consensus size: 21
10291568 GATTTACATA
10291578 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* *
10291599 TTCGCATTGAGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
*
10291620 TTCGCATTGCGATAGTCCATG
1 TTCGCATTGCGATAGTCCAAG
* * *
10291641 CTCGCATTGCGATAGT-CGAC
1 TTCGCATTGCGATAGTCCAAG
* *
10291661 TATCGCATTGCGAT-TTACATA-
1 T-TCGCATTGCGATAGTCCA-AG
*
10291682 TTCCCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
10291703 TTCGCATTGCGATAGTTCAAG
1 TTCGCATTGCGATAGTCCAAG
* *
10291724 CTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
*
10291745 TTCGCATTGCGATAGTTCAAG
1 TTCGCATTGCGATAGTCCAAG
*
10291766 CTCGCATTGCGAT
1 TTCGCATTGCGAT
10291779 TTAGTTGGTC
Statistics
Matches: 151, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
20 14 0.09
21 136 0.90
22 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:10291604 original size:104 final size:105
Alignment explanation
Indices: 10291412--10291719 Score: 294
Period size: 104 Copynumber: 3.0 Consensus size: 105
10291402 TTTGGAATAA
* * * *
10291412 ATCGCAACGCGAACTTCGACTATCGCAATGCGAACTTCGACTATCGCAATGCGAACTT-CGACTA
1 ATCGCAATGCGAACTTGGACTATCGCAATGCGAACTTCGACTATCGCATTGCG-ATTTAC-A-TA
* * *
10291476 -TCGCAATGCGAATATGT--AA-ATCGCAATGCGATAGTTG-ACT
63 TTCGCATTGCG-ATA-GTCCAAGTTCGCATTGCGATAGTTGAACT
* *
10291516 ATCGCAATGCGAACTTGGACTATCACAACGCGAACTTCGACTATCGCATTGCGATTTACATATTC
1 ATCGCAATGCGAACTTGGACTATCGCAATGCGAACTTCGACTATCGCATTGCGATTTACATATTC
* * *
10291581 GCATTGCGATAGTCCAAGTTCGCATTGAGATAGTCGAAGT
66 GCATTGCGATAGTCCAAGTTCGCATTGCGATAGTTGAACT
* * ** * * *
10291621 -TCGCATTGCG-A-TAGTCCATGCTCGCATTGCGATA-GTCGACTATCGCATTGCGATTTACATA
1 ATCGCAATGCGAACTTGGAC-T-ATCGCAATGCGA-ACTTCGACTATCGCATTGCGATTTACATA
*
10291682 TTCCCATTGCGATAGTCCAAGTTCGCATTGCGATAGTT
63 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTT
10291720 CAAGCTCGCA
Statistics
Matches: 171, Mismatches: 24, Indels: 18
0.80 0.11 0.08
Matches are distributed among these distances:
101 2 0.01
102 8 0.05
103 17 0.10
104 141 0.82
105 3 0.02
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (105 bp):
ATCGCAATGCGAACTTGGACTATCGCAATGCGAACTTCGACTATCGCATTGCGATTTACATATTC
GCATTGCGATAGTCCAAGTTCGCATTGCGATAGTTGAACT
Found at i:10291627 original size:42 final size:42
Alignment explanation
Indices: 10291578--10291778 Score: 264
Period size: 42 Copynumber: 4.8 Consensus size: 42
10291568 GATTTACATA
* *
10291578 TTCGCATTGCGATAGTCCAAGTTCGCATTGAGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAGCTCGCATTGCGATAGTCGAAG
* *
10291620 TTCGCATTGCGATAGTCCATGCTCGCATTGCGATAGTCG-AC
1 TTCGCATTGCGATAGTCCAAGCTCGCATTGCGATAGTCGAAG
* * * * *
10291661 TATCGCATTGCGAT-TTACATA-TTCCCATTGCGATAGTCCAAG
1 T-TCGCATTGCGATAGTCCA-AGCTCGCATTGCGATAGTCGAAG
*
10291703 TTCGCATTGCGATAGTTCAAGCTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAGCTCGCATTGCGATAGTCGAAG
*
10291745 TTCGCATTGCGATAGTTCAAGCTCGCATTGCGAT
1 TTCGCATTGCGATAGTCCAAGCTCGCATTGCGAT
10291779 TTAGTTGGTC
Statistics
Matches: 138, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
41 33 0.24
42 105 0.76
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (42 bp):
TTCGCATTGCGATAGTCCAAGCTCGCATTGCGATAGTCGAAG
Found at i:10291729 original size:104 final size:105
Alignment explanation
Indices: 10291551--10291781 Score: 353
Period size: 104 Copynumber: 2.2 Consensus size: 105
10291541 CAACGCGAAC
*
10291551 TTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGAGATAGTC
1 TTCGACTATCGCATTGCGATTTACATATTCCCATTGCGATAGTCCAAGTTCGCATTGAGATAGTC
* *
10291616 GAAGTTCGCATTGCGATAGTCCATGCTCGCATTGCGATAG
66 GAAGCTCGCATTGCGATAGTCCAAGCTCGCATTGCGATAG
*
10291656 -TCGACTATCGCATTGCGATTTACATATTCCCATTGCGATAGTCCAAGTTCGCATTGCGATAGTT
1 TTCGACTATCGCATTGCGATTTACATATTCCCATTGCGATAGTCCAAGTTCGCATTGAGATAG-T
* *
10291720 C-AAGCTCGCATTGCGATAGTCGAAGTTCGCATTGCGATAG
65 CGAAGCTCGCATTGCGATAGTCCAAGCTCGCATTGCGATAG
*
10291760 TTCAAGC--TCGCATTGCGATTTA
1 TTCGA-CTATCGCATTGCGATTTA
10291782 GTTGGTCATT
Statistics
Matches: 116, Mismatches: 7, Indels: 7
0.89 0.05 0.05
Matches are distributed among these distances:
104 110 0.95
105 5 0.04
106 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.32
Consensus pattern (105 bp):
TTCGACTATCGCATTGCGATTTACATATTCCCATTGCGATAGTCCAAGTTCGCATTGAGATAGTC
GAAGCTCGCATTGCGATAGTCCAAGCTCGCATTGCGATAG
Found at i:10296513 original size:16 final size:16
Alignment explanation
Indices: 10296492--10296538 Score: 94
Period size: 16 Copynumber: 2.9 Consensus size: 16
10296482 GTCCTTAGAG
10296492 TGAAACTAGTCACAAT
1 TGAAACTAGTCACAAT
10296508 TGAAACTAGTCACAAT
1 TGAAACTAGTCACAAT
10296524 TGAAACTAGTCACAA
1 TGAAACTAGTCACAA
10296539 ATGTTGCTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.23
Consensus pattern (16 bp):
TGAAACTAGTCACAAT
Found at i:10297544 original size:41 final size:41
Alignment explanation
Indices: 10297497--10297575 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
10297487 CTTGATTTAA
* *
10297497 ATTGAATTGGTTTGTGAATTAATACATGCTATCATGATCTT
1 ATTGAATTGGTTTGTGAATAAATACATGCTACCATGATCTT
* *
10297538 ATTGAATTGGTTTGTGAATAAATGCATGTTACCATGAT
1 ATTGAATTGGTTTGTGAATAAATACATGCTACCATGAT
10297576 AGAATCAAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (41 bp):
ATTGAATTGGTTTGTGAATAAATACATGCTACCATGATCTT
Found at i:10297596 original size:41 final size:41
Alignment explanation
Indices: 10297551--10297801 Score: 290
Period size: 41 Copynumber: 6.1 Consensus size: 41
10297541 GAATTGGTTT
* * *
10297551 GTGAATAAATGCATGTTACCATGATAGAATCAAGTTGAATG
1 GTGAATTATTGCATGTTACCATGATCGAATCAAGTTGAATG
*
10297592 GTGAATTATTGTC-TATTACCATGATCGAATCAAGTTGAATG
1 GTGAATTATTG-CATGTTACCATGATCGAATCAAGTTGAATG
* *
10297633 GTGAATTATTGTATGCTACCATGATCGAATCAAGTTGAATG
1 GTGAATTATTGCATGTTACCATGATCGAATCAAGTTGAATG
** * * *
10297674 GTGAATTATTATATGTTACCATGATTGAATCAATTTAAATG
1 GTGAATTATTGCATGTTACCATGATCGAATCAAGTTGAATG
* * * * **
10297715 GTGAAGTATTGCATGTTGCCATGATTGAATTGAA-TCAAATG
1 GTGAATTATTGCATGTTACCATGATCGAA-TCAAGTTGAATG
* *
10297756 GTGAATTATTGCATGCTACCATGATCGAATTAAGTTGAATG
1 GTGAATTATTGCATGTTACCATGATCGAATCAAGTTGAATG
*
10297797 ATGAA
1 GTGAA
10297802 CTACTATATG
Statistics
Matches: 180, Mismatches: 26, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
40 3 0.02
41 173 0.96
42 4 0.02
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.35
Consensus pattern (41 bp):
GTGAATTATTGCATGTTACCATGATCGAATCAAGTTGAATG
Found at i:10297737 original size:123 final size:123
Alignment explanation
Indices: 10297563--10297816 Score: 332
Period size: 123 Copynumber: 2.1 Consensus size: 123
10297553 GAATAAATGC
* *
10297563 ATGTTACCATGATAGAATCAAGTTGAATGGTGAATTATTGTCTATTACCATGATCGAA-TCAAGT
1 ATGTTACCATGATAGAATCAAGTTAAATGGTGAAGTATTGTCTATTACCATGATCGAATTCAA-T
** * * * *
10297627 TGAATGGTGAATTATTGTATGCTACCATGATCGAATCAAGTTGAATGGTGAATTATTAT
65 CAAATGGTGAATTATTGCATGCTACCATGATCGAATCAAGTTGAATGATGAACTACTAT
* * * * * *
10297686 ATGTTACCATGATTGAATCAATTTAAATGGTGAAGTATTG-CATGTTGCCATGATTGAATTGAAT
1 ATGTTACCATGATAGAATCAAGTTAAATGGTGAAGTATTGTC-TATTACCATGATCGAATTCAAT
*
10297750 CAAATGGTGAATTATTGCATGCTACCATGATCGAATTAAGTTGAATGATGAACTACTAT
65 CAAATGGTGAATTATTGCATGCTACCATGATCGAATCAAGTTGAATGATGAACTACTAT
*
10297809 ATGCTACC
1 ATGTTACC
10297817 TAGATCGAAC
Statistics
Matches: 113, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
122 1 0.01
123 109 0.96
124 3 0.03
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (123 bp):
ATGTTACCATGATAGAATCAAGTTAAATGGTGAAGTATTGTCTATTACCATGATCGAATTCAATC
AAATGGTGAATTATTGCATGCTACCATGATCGAATCAAGTTGAATGATGAACTACTAT
Found at i:10306558 original size:32 final size:31
Alignment explanation
Indices: 10306464--10306558 Score: 95
Period size: 32 Copynumber: 3.0 Consensus size: 31
10306454 CTGACACTCA
* *
10306464 TTTGCATTATCTAAATGAAACATTGATCTTAT
1 TTTGCATTATCTAAATGCAACATAGATC-TAT
* * *
10306496 TATGCA-T-TCTAAATGCAACACAAACTCTAT
1 TTTGCATTATCTAAATGCAACATAGA-TCTAT
*
10306526 TTTGCATTATCTGAATGCAACATAGATACTAT
1 TTTGCATTATCTAAATGCAACATAGAT-CTAT
10306558 T
1 T
10306559 ATACAACACA
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
30 21 0.42
31 5 0.10
32 24 0.48
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (31 bp):
TTTGCATTATCTAAATGCAACATAGATCTAT
Found at i:10326420 original size:20 final size:21
Alignment explanation
Indices: 10326378--10326421 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
10326368 TTTGATTTTT
*
10326378 TGATATGGAATTGATTGAGAA
1 TGATATGGAATTGATGGAGAA
10326399 TGAT-TGGAATTGAATGGA-AA
1 TGATATGGAATTG-ATGGAGAA
10326419 TGA
1 TGA
10326422 ATTGTAGGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.39, C:0.00, G:0.30, T:0.32
Consensus pattern (21 bp):
TGATATGGAATTGATGGAGAA
Found at i:10328691 original size:22 final size:21
Alignment explanation
Indices: 10328661--10328701 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
10328651 GAATAATATT
*
10328661 TAATAAATTATGTATTAAATGC
1 TAATAAATTAAGT-TTAAATGC
*
10328683 TAATTAATTAAGTTTAAAT
1 TAATAAATTAAGTTTAAAT
10328702 AAGCAGTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.44
Consensus pattern (21 bp):
TAATAAATTAAGTTTAAATGC
Found at i:10330220 original size:32 final size:32
Alignment explanation
Indices: 10330127--10330220 Score: 98
Period size: 32 Copynumber: 2.9 Consensus size: 32
10330117 ACTAACTGTA
* ** *
10330127 ACTGTTTTGCATTATCTAAATGTGACACTAAC
1 ACTGTTATGCATTATCTAAATGCAACACTGAC
* * * *
10330159 ACTCTTATGCATTATTTGAATACAACACTGAC
1 ACTGTTATGCATTATCTAAATGCAACACTGAC
* *
10330191 TCTGTTGTGCATTATCTAAATGCAACACTG
1 ACTGTTATGCATTATCTAAATGCAACACTG
10330221 CTAGTATCTG
Statistics
Matches: 48, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (32 bp):
ACTGTTATGCATTATCTAAATGCAACACTGAC
Found at i:10336363 original size:18 final size:19
Alignment explanation
Indices: 10336337--10336377 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
10336327 TTAAGAAAAA
*
10336337 AAATTTAAAATGCTTTT-G
1 AAATGTAAAATGCTTTTAG
*
10336355 AAATGTAAAATGGTTTTAG
1 AAATGTAAAATGCTTTTAG
10336374 AAAT
1 AAAT
10336378 TCGGATAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.44, C:0.02, G:0.15, T:0.39
Consensus pattern (19 bp):
AAATGTAAAATGCTTTTAG
Found at i:10339282 original size:44 final size:44
Alignment explanation
Indices: 10339233--10339359 Score: 136
Period size: 44 Copynumber: 3.2 Consensus size: 44
10339223 TTAAACATTA
10339233 TATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAG
1 TATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAG
**
10339277 TATTTTAAT-TAAGTTTTAGG-A---TA--TT--AT---TTTTA-
1 TATTTT-ATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAG
10339309 TATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAG
1 TATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAG
10339353 TATTTTA
1 TATTTTA
10339360 ATTAGGATTT
Statistics
Matches: 65, Mismatches: 4, Indels: 28
0.67 0.04 0.29
Matches are distributed among these distances:
31 2 0.03
32 15 0.23
33 6 0.09
36 4 0.06
38 4 0.06
40 4 0.06
43 6 0.09
44 22 0.34
45 2 0.03
ACGTcount: A:0.25, C:0.02, G:0.13, T:0.60
Consensus pattern (44 bp):
TATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAG
Found at i:10339337 original size:76 final size:75
Alignment explanation
Indices: 10339230--10339444 Score: 308
Period size: 76 Copynumber: 2.9 Consensus size: 75
10339220 ATTTTAAACA
*
10339230 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGTTTTA
1 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGATTTA
*
10339295 GGATATTATTT
66 GAATATTA-TT
*
10339306 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTA
1 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGATTTA
10339371 GAATATTATT
66 GAATATTATT
* * * * * * *
10339381 TTAAATATTATTTTTG-TTTATGCATTTTAGTTTAAATA-GTTTTAAGTGTTTTAATTAGGATTT
1 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTT-AGTATTTTAATTAAGATTT
10339444 A
65 A
10339445 AGATGTTTTA
Statistics
Matches: 129, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
73 5 0.04
74 39 0.30
75 15 0.12
76 70 0.54
ACGTcount: A:0.28, C:0.01, G:0.13, T:0.58
Consensus pattern (75 bp):
TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGATTTA
GAATATTATT
Found at i:10344993 original size:58 final size:60
Alignment explanation
Indices: 10344913--10345028 Score: 218
Period size: 58 Copynumber: 2.0 Consensus size: 60
10344903 ATTTTAAACA
10344913 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAG
1 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAG
10344973 TTATATTTTATC-TT-TTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTA
1 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTA
10345029 GGATTTAGAA
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
58 42 0.75
59 2 0.04
60 12 0.21
ACGTcount: A:0.27, C:0.02, G:0.12, T:0.59
Consensus pattern (60 bp):
TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAG
Found at i:10345735 original size:17 final size:17
Alignment explanation
Indices: 10345710--10345743 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10345700 CTTTATCCCA
*
10345710 ATTTATTTATTTTATTT
1 ATTTATTTATTTAATTT
*
10345727 ATTTGTTTATTTAATTT
1 ATTTATTTATTTAATTT
10345744 TCATCTCATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTATTTATTTAATTT
Found at i:10359288 original size:12 final size:12
Alignment explanation
Indices: 10359271--10359308 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
10359261 TAATAAAAAT
10359271 ATTTTAATTAAA
1 ATTTTAATTAAA
10359283 ATTTTAA-TAAA
1 ATTTTAATTAAA
*
10359294 ATTTTAATTATA
1 ATTTTAATTAAA
10359306 ATT
1 ATT
10359309 AAAGAATCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 11 0.46
12 13 0.54
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
ATTTTAATTAAA
Found at i:10359295 original size:11 final size:11
Alignment explanation
Indices: 10359271--10359301 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
10359261 TAATAAAAAT
10359271 ATTTTAATTAAA
1 ATTTTAA-TAAA
10359283 ATTTTAATAAA
1 ATTTTAATAAA
10359294 ATTTTAAT
1 ATTTTAAT
10359302 TATAATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.63
12 7 0.37
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
ATTTTAATAAA
Found at i:10364459 original size:12 final size:12
Alignment explanation
Indices: 10364432--10364506 Score: 55
Period size: 12 Copynumber: 6.2 Consensus size: 12
10364422 TTTATACTTT
*
10364432 ATGTTCTAAGTTG
1 ATGTTATAA-TTG
10364445 ATGTTATAATTG
1 ATGTTATAATTG
* *
10364457 ATGTTAAAAAT-
1 ATGTTATAATTG
10364468 ATGTTATTATATT-
1 ATGTTA-TA-ATTG
* *
10364481 ATTTTATAATTT
1 ATGTTATAATTG
*
10364493 ATGTTATGATTG
1 ATGTTATAATTG
10364505 AT
1 AT
10364507 AGATTTTCAT
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
11 9 0.18
12 26 0.52
13 15 0.30
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.52
Consensus pattern (12 bp):
ATGTTATAATTG
Found at i:10369776 original size:22 final size:22
Alignment explanation
Indices: 10369708--10369776 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
10369698 TAAGCAATTA
10369708 AATTTAATATAA-ATATTTATAAT
1 AATTTAA-ATAATAT-TTTATAAT
* * **
10369731 -A-TTATAATATTATTTGATTCT
1 AATTTA-AATAATATTTTATAAT
10369752 AATTTAAATAATATTTTATAAT
1 AATTTAAATAATATTTTATAAT
10369774 AAT
1 AAT
10369777 ATATAATACA
Statistics
Matches: 34, Mismatches: 8, Indels: 9
0.67 0.16 0.18
Matches are distributed among these distances:
21 11 0.32
22 20 0.59
23 3 0.09
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (22 bp):
AATTTAAATAATATTTTATAAT
Found at i:10370042 original size:4 final size:4
Alignment explanation
Indices: 10370035--10370091 Score: 71
Period size: 4 Copynumber: 14.0 Consensus size: 4
10370025 AATTAATTAG
* *
10370035 TATT TATT TATTT TTTT TATT TATT TATT T-TT TATT TATT TAGT TATT
1 TATT TATT TA-TT TATT TATT TATT TATT TATT TATT TATT TATT TATT
10370083 TAATT TATT
1 T-ATT TATT
10370092 AGTATTTTGA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
3 3 0.07
4 36 0.78
5 7 0.15
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (4 bp):
TATT
Found at i:10370098 original size:23 final size:19
Alignment explanation
Indices: 10370035--10370083 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
10370025 AATTAATTAG
*
10370035 TATTTATTTA-TTTTT-TT
1 TATTTAGTTATTTTTTATT
*
10370052 TATTTATTTATTTTTTATT
1 TATTTAGTTATTTTTTATT
10370071 TATTTAGTTATTT
1 TATTTAGTTATTT
10370084 AATTTATTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 10 0.34
18 5 0.17
19 14 0.48
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (19 bp):
TATTTAGTTATTTTTTATT
Found at i:10376551 original size:50 final size:50
Alignment explanation
Indices: 10376496--10376592 Score: 133
Period size: 50 Copynumber: 1.9 Consensus size: 50
10376486 ACATGAAGAT
* *
10376496 TTTGGCGCCAAGATGAACCAA-CACATCATCATTCGGCCAAGGAAGATAAC
1 TTTGGCGCCAAAATGAA-CAAGCACATCACCATTCGGCCAAGGAAGATAAC
** *
10376546 TTTGGCGCCAAAATGAACAAGCATGTCACCATTCGGCCAAGGGAGAT
1 TTTGGCGCCAAAATGAACAAGCACATCACCATTCGGCCAAGGAAGAT
10376593 GTATCTTCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
49 3 0.07
50 38 0.93
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.19
Consensus pattern (50 bp):
TTTGGCGCCAAAATGAACAAGCACATCACCATTCGGCCAAGGAAGATAAC
Found at i:10377958 original size:20 final size:21
Alignment explanation
Indices: 10377935--10377977 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
10377925 ACCAACCTTG
*
10377935 TTAAAATAATATT-TAATATT
1 TTAAAATAATATTAAAATATT
*
10377955 TTAAAATTATATTAAAATATT
1 TTAAAATAATATTAAAATATT
10377976 TT
1 TT
10377978 CCAATTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTAAAATAATATTAAAATATT
Found at i:10383181 original size:19 final size:21
Alignment explanation
Indices: 10383156--10383211 Score: 71
Period size: 19 Copynumber: 2.7 Consensus size: 21
10383146 AATTCAAAAA
*
10383156 TAGTATCGATACCGTA-ATAG
1 TAGTATCGATACCATAGATAG
*
10383176 -AGTATCAATACCATAGTATAG
1 TAGTATCGATACCATAG-ATAG
10383197 TAGTATCGATACCAT
1 TAGTATCGATACCAT
10383212 GGTAGGGGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 13 0.43
21 4 0.13
22 13 0.43
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (21 bp):
TAGTATCGATACCATAGATAG
Found at i:10389921 original size:57 final size:57
Alignment explanation
Indices: 10389841--10390203 Score: 620
Period size: 57 Copynumber: 6.4 Consensus size: 57
10389831 AAGGCACTGA
*
10389841 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTT
10389898 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTT
*
10389955 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCTCTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTT
* * *
10390012 GTGTGTAAAAAGTTAAGAAATTCATAATAAGTGTATGAATTTTCGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTT
10390069 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTT
* * *
10390126 GTGTGTAAAAATTTAAGAAATTCATAATTAGTTTATGAATTTCCGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTT
* * *
10390183 ATGTGTAGAAA-TTAAGAAATT
1 GTGTGCAAAAAGTTAAGAAATT
10390204 ATATGAATTT
Statistics
Matches: 292, Mismatches: 14, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
56 10 0.03
57 282 0.97
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (57 bp):
GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTT
Found at i:10395886 original size:5 final size:5
Alignment explanation
Indices: 10395878--10395903 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
10395868 TTTTATTATT
10395878 TCGGG TCGGG TCGGG TCGGG TCGGG T
1 TCGGG TCGGG TCGGG TCGGG TCGGG T
10395904 TTCTAAGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.58, T:0.23
Consensus pattern (5 bp):
TCGGG
Found at i:10396825 original size:12 final size:12
Alignment explanation
Indices: 10396794--10396842 Score: 62
Period size: 12 Copynumber: 4.0 Consensus size: 12
10396784 CCTCCATTTG
10396794 TAATAATAATATA
1 TAATAAT-ATATA
* *
10396807 AAATAATTTATA
1 TAATAATATATA
*
10396819 TATTAATATATA
1 TAATAATATATA
10396831 TAATAATATATA
1 TAATAATATATA
10396843 ATAACATAAC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 24 0.80
13 6 0.20
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TAATAATATATA
Found at i:10398242 original size:55 final size:55
Alignment explanation
Indices: 10398177--10398291 Score: 151
Period size: 55 Copynumber: 2.1 Consensus size: 55
10398167 TGTTCTAATT
* * *
10398177 TATCTCTTGAAAC-ACATCACAAGAAGGATTTATCCTAGTTCATTTCATGTCTCCA
1 TATCTCTTGAAACAAC-TCACAAAAAGAATTTATCCTAATTCATTTCATGTCTCCA
* * * *
10398232 TATCTCTTGAAATAACTCATAAAAAGAATTTATCCTAATTCCTTTCATGTCTTCA
1 TATCTCTTGAAACAACTCACAAAAAGAATTTATCCTAATTCATTTCATGTCTCCA
10398287 TATCT
1 TATCT
10398292 AATCAAATCT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
55 50 0.96
56 2 0.04
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (55 bp):
TATCTCTTGAAACAACTCACAAAAAGAATTTATCCTAATTCATTTCATGTCTCCA
Found at i:10406874 original size:10 final size:10
Alignment explanation
Indices: 10406859--10406909 Score: 60
Period size: 10 Copynumber: 5.7 Consensus size: 10
10406849 TCTATTTGTA
10406859 ATAATAATAT
1 ATAATAATAT
10406869 ATAATAAT-T
1 ATAATAATAT
10406878 -T-AT-ATAT
1 ATAATAATAT
10406885 -TAAT-ATAT
1 ATAATAATAT
10406893 ATAATAATAT
1 ATAATAATAT
10406903 ATAATAA
1 ATAATAA
10406910 CATAACACTC
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
6 2 0.05
7 4 0.11
8 7 0.19
9 5 0.14
10 19 0.51
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
ATAATAATAT
Found at i:10406883 original size:12 final size:11
Alignment explanation
Indices: 10406859--10406909 Score: 61
Period size: 12 Copynumber: 4.6 Consensus size: 11
10406849 TCTATTTGTA
10406859 ATAATAA-TAT
1 ATAATAATTAT
10406869 ATAATAATTTAT
1 ATAATAA-TTAT
*
10406881 ATATTAATATAT
1 ATAATAAT-TAT
10406893 ATAATAA-TAT
1 ATAATAATTAT
10406903 ATAATAA
1 ATAATAA
10406910 CATAACACTC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
10 17 0.47
11 1 0.03
12 18 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
ATAATAATTAT
Found at i:10408204 original size:38 final size:38
Alignment explanation
Indices: 10408094--10408292 Score: 258
Period size: 38 Copynumber: 5.2 Consensus size: 38
10408084 TTCTTTGATA
*
10408094 TTCGGTGCAAATAGTGGGC-CTGACCTTATGTGTAGCAC
1 TTCGGTGCAAATGGTGGGCAC-GACCTTATGTGTAGCAC
* * *
10408132 TTTGGTGCAAAT-ATGGGTACGACCTTATGTGTAGCAC
1 TTCGGTGCAAATGGTGGGCACGACCTTATGTGTAGCAC
* *
10408169 TTTGGTGCAAATGGTGGGCACAACCTTATGTGTAGCAC
1 TTCGGTGCAAATGGTGGGCACGACCTTATGTGTAGCAC
* *
10408207 TTCAGTGCAAATGGTGGGCATGACCTTATGTGTAGCAC
1 TTCGGTGCAAATGGTGGGCACGACCTTATGTGTAGCAC
* * *
10408245 TTCGGTTCATACGGTGGGCACGACCTTATGTGTAAGCAC
1 TTCGGTGCAAATGGTGGGCACGACCTTATGTGT-AGCAC
*
10408284 TACGGTGCA
1 TTCGGTGCA
10408293 TATATTTGAC
Statistics
Matches: 141, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
37 33 0.23
38 96 0.68
39 12 0.09
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (38 bp):
TTCGGTGCAAATGGTGGGCACGACCTTATGTGTAGCAC
Found at i:10410666 original size:55 final size:54
Alignment explanation
Indices: 10410595--10410845 Score: 267
Period size: 55 Copynumber: 4.6 Consensus size: 54
10410585 ATTTACAAAC
* * *
10410595 CCTATACTCCTTGAAAGAAGAAGGAACATACCCATTTTTCGAAGATTGTTCGAGT
1 CCTATACTCCTTGAAAGAAGAAGGAGCAGA-CCATTTGTCGAAGATTGTTCGAGT
** *
10410650 CCTATACTCCCAGAAAGAAGAAGGAGCGGA-CATGTCTGTCGAAGATTGTTCGAGT
1 CCTATACTCCTTGAAAGAAGAAGGAGCAGACCAT-T-TGTCGAAGATTGTTCGAGT
* * * *
10410705 CCTATACTCCTTGGAAGAAGAAGGAGCAGACTTATTT-TATGAAAATTGTTCGAGT
1 CCTATACTCCTTGAAAGAAGAAGGAGCAGAC-CATTTGT-CGAAGATTGTTCGAGT
* * *
10410760 CCTATACTTCC-TGAAAGAAG-TGAGAGCAGACACATTTGCCGAAGATTGTTCGGGT
1 CCTATAC-TCCTTGAAAGAAGAAG-GAGCAGAC-CATTTGTCGAAGATTGTTCGAGT
*
10410815 CCTATACTCCTTGAAAGAAGAGTGGAGCAGA
1 CCTATACTCCTTGAAAGAAGA-AGGAGCAGA
10410846 TCAAGTCCGA
Statistics
Matches: 164, Mismatches: 21, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
53 3 0.02
54 6 0.04
55 140 0.85
56 11 0.07
57 4 0.02
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.26
Consensus pattern (54 bp):
CCTATACTCCTTGAAAGAAGAAGGAGCAGACCATTTGTCGAAGATTGTTCGAGT
Found at i:10410803 original size:110 final size:110
Alignment explanation
Indices: 10410595--10410845 Score: 317
Period size: 110 Copynumber: 2.3 Consensus size: 110
10410585 ATTTACAAAC
* * *
10410595 CCTATACTCCTTGAAAGAAGAAGGAACATACCCATTTTTCGAAGATTGTTCGAGTCCTATACTCC
1 CCTATACTCCTTGAAAGAAGAAGGAGCAGACCCATTTTTCGAAAATTGTTCGAGTCCTATACTCC
* ** *
10410660 CAGAAAGAAGAAGGAGCGGACATGTCTGTCGAAGATTGTTCGAGT
66 CAGAAAGAAGAAGGAGCAGACACATCTGCCGAAGATTGTTCGAGT
* ** *
10410705 CCTATACTCCTTGGAAGAAGAAGGAGCAGACTTATTTTAT-GAAAATTGTTCGAGTCCTATACTT
1 CCTATACTCCTTGAAAGAAGAAGGAGCAGACCCATTTT-TCGAAAATTGTTCGAGTCCTATACTC
* * * *
10410769 CCTGAAAGAAG-TGAGAGCAGACACATTTGCCGAAGATTGTTCGGGT
65 CCAGAAAGAAGAAG-GAGCAGACACATCTGCCGAAGATTGTTCGAGT
*
10410815 CCTATACTCCTTGAAAGAAGAGTGGAGCAGA
1 CCTATACTCCTTGAAAGAAGA-AGGAGCAGA
10410846 TCAAGTCCGA
Statistics
Matches: 121, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
109 1 0.01
110 111 0.92
111 9 0.07
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.26
Consensus pattern (110 bp):
CCTATACTCCTTGAAAGAAGAAGGAGCAGACCCATTTTTCGAAAATTGTTCGAGTCCTATACTCC
CAGAAAGAAGAAGGAGCAGACACATCTGCCGAAGATTGTTCGAGT
Done.